Index

_

_cellpose_z_segment_fn._segment() (in module spacr.object)

A

a_folder_holding() (in module spacr.qt.ask_for_the_path) a_more_interesting_anchor() (in module spacr.qt.widgets.fractal_mandelbrot) a_popup_is_on_screen() (in module spacr.qt.widgets.popup_state) about_text() (spacr.qt.widgets.annotation_strategy_panel.AnnotationStrategyPanel method) above_null() (spacr.qt.widgets.feature_rank.ExplorerResult method) absent (spacr.portable_paths.RerootReport property) abstained (spacr.sudoku.SudokuResult property) AbundanceClippedWarning accelerated_backends() (in module spacr.ops_accel) Accelerator (class in spacr.accelerator) accent_alpha() (spacr.qt.widgets.setup_card.SetupCard method) accent_icon() (in module spacr.qt.iconset) accent_peak() (spacr.qt.widgets.setup_card.SetupCard method) accent_span() (spacr.qt.widgets.setup_card.SetupCard method) accent_start() (spacr.qt.widgets.setup_card.SetupCard method) accept() (spacr.qt.widgets.column_picker.ColumnPickerDialog method) (spacr.qt.widgets.sample_project.SampleProjectDialog method) (spacr.qt.widgets.setup_dialog.SetupDialog method) (spacr.qt.widgets.setup_slides.SetupSlides method) accepted (spacr.ops_stitch.StitchedWell property) accepted_cycles() (in module spacr.ops_cycles) accepted_groups() (spacr.settings.BarcodeEntry method) accepted_pairs (spacr.align.AlignPlan property) accepted_settings() (spacr.qt.widgets.settings_advisor_dialog.SettingsAdvisorDialog method) accepts_multiple() (spacr.qt.dnd.DropHandler method) (spacr.qt.dnd_handlers.BatchDropHandler method) (spacr.qt.dnd_handlers.CellposeFolderDropHandler method) (spacr.qt.dnd_handlers.ExplainCvInputsDropHandler method) (spacr.qt.dnd_handlers.ExternalMasksDropHandler method) (spacr.qt.dnd_handlers.ForeignProjectDropHandler method) (spacr.qt.dnd_handlers.InvestigateHitInputsDropHandler method) (spacr.qt.dnd_handlers.LayerStackDropHandler method) (spacr.qt.dnd_handlers.MakeMasksDropHandler method) (spacr.qt.dnd_handlers.MaskDropHandler method) (spacr.qt.dnd_handlers.MethodsSourcesDropHandler method) (spacr.qt.dnd_handlers.PlaqueDropHandler method) (spacr.qt.dnd_handlers.PlateQueueDropHandler method) (spacr.qt.dnd_handlers.ProjectRootsDropHandler method) (spacr.qt.dnd_handlers.RegressionDropHandler method) (spacr.qt.dnd_handlers.SweepInputsDropHandler method) accuracy (spacr.active_learning.RoundResult property) (spacr.classifier_quality.Confusion property) AcquisitionMetadataConflictError action() (spacr.qt.widgets.column_picker.ColumnPickerDialog method) (spacr.qt.widgets.home.Panel method) action_role() (in module spacr.qt.button_roles) activation_correlations_to_database() (in module spacr.utils) activation_fit_fn() (in module spacr.hyperparam) activation_maps_to_database() (in module spacr.utils) activation_search() (in module spacr.hyperparam) ActivationSearchData (class in spacr.hyperparam) active (spacr.counting.CountingSession property) (spacr.qt.screens.map_barcodes.CategoryFold property) (spacr.qt.widgets.flash.Flash property) (spacr.qt.widgets.fractal_travel.RegionTour property) active() (in module spacr.qt.gil_priority) (spacr.qt.bridge.RunRegistry method) active_app_key() (spacr.qt.screens.train_cellpose.CellposeWorkbenchScreen method) active_gate (spacr.qt.widgets.gate_editor.GateCanvas property) active_gate() (spacr.qt.widgets.gate_editor.GateTree method) active_jobs() (spacr.qt.job_runner.JobRunner method) (spacr.qt.screens.agreement.AgreementScreen method) (spacr.qt.screens.align.AlignScreen method) (spacr.qt.screens.annotate.AnnotateScreen method) (spacr.qt.screens.app_screen.AppScreen method) (spacr.qt.screens.batch.BatchScreen method) (spacr.qt.screens.control_chart.ControlChartScreen method) (spacr.qt.screens.convert.ConvertScreen method) (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.dose_response.DoseResponseScreen method) (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) (spacr.qt.screens.feature_explorer.FeatureExplorerScreen method) (spacr.qt.screens.foreign.ForeignScreen method) (spacr.qt.screens.gate_editor.GateEditorScreen method) (spacr.qt.screens.graph_builder.GraphBuilderScreen method) (spacr.qt.screens.hit_list.HitListScreen method) (spacr.qt.screens.image_import.ImageImportScreen method) (spacr.qt.screens.methods_export.MethodsExportScreen method) (spacr.qt.screens.model_compare.ModelCompareScreen method) (spacr.qt.screens.model_zoo.ModelZooScreen method) (spacr.qt.screens.outliers.OutliersScreen method) (spacr.qt.screens.pca.PCAScreen method) (spacr.qt.screens.pipeline_graph.PipelineGraphScreen method) (spacr.qt.screens.plate_view.PlateViewScreen method) (spacr.qt.screens.power.PowerScreen method) (spacr.qt.screens.profiler.ProfilerScreen method) (spacr.qt.screens.project_browser.ProjectBrowserScreen method) (spacr.qt.screens.qc_dashboard.QCDashboardScreen method) (spacr.qt.screens.report.ReportScreen method) (spacr.qt.screens.tabulate.TabulateScreen method) (spacr.qt.screens.train_compare.TrainCompareScreen method) (spacr.qt.screens.trellis.TrellisScreen method) (spacr.qt.widgets.column_picker.ColumnPickerDialog method) (spacr.qt.widgets.figure_queue.FigureQueue method) (spacr.qt.widgets.home.HomePage method) (spacr.qt.widgets.pca_view.PCAPanel method) (spacr.qt.widgets.row_exclusion.RowExclusionEditor method) active_organelle_roles() (in module spacr.organelle_types) active_page_colour() (in module spacr.qt.theme) active_palette() (in module spacr.qt.theme) (in module spacr.qt.widgets.home) active_scan_jobs() (in module spacr.qt.dnd_handlers) active_screen() (spacr.qt.screens.train_cellpose.CellposeWorkbenchScreen method) active_theme() (in module spacr.qt.iconset) ActivitySpinner (class in spacr.qt.widgets.activity_spinner) adaptive_parameters() (spacr.qt.screens.hyperparam.HyperparamPanel method) add() (spacr.batch.Queue method) (spacr.counting.CountingSession method) (spacr.layers.CanvasLink method) (spacr.layers.PointsLayer method) (spacr.layers.ShapesLayer method) (spacr.qt.plate_queue.PlateQueue method) (spacr.qt.widgets.formula.FormulaSet method) (spacr.qt.widgets.gate_spec.GateSet method) (spacr.qt.widgets.home.Panel method) (spacr.selection.DataFilter method) (spacr.umap_search.SearchTable method) add_action() (spacr.qt.widgets.home.Panel method) add_bars() (spacr.qt.widgets.fast_plots.BinnedPlot method) add_beeswarm() (spacr.qt.widgets.fast_plots.FastPlot method) add_class() (spacr.counting.CountingSession method) (spacr.qt.counting_tool.CountingPanel method) add_close_button() (spacr.qt.screens.make_masks.FoldedModulePanel method) add_colored_border() (in module spacr.qt.annotate_engine) add_column() (spacr.qt.widgets.data_filter_panel.DataFilterPanel method) add_column_to_database() (in module spacr.utils) add_curve() (spacr.qt.widgets.fast_plots.FastPlot method) add_dropped() (spacr.qt.widgets.measure_input_table.MeasureInputTable method) add_ellipse() (spacr.layers.ShapesLayer method) add_field() (spacr.qt.widgets.measure_input_table.MeasureInputTable method) add_figure() (spacr.qt.widgets.figure_grid.SearchFigureGrid method) (spacr.qt.widgets.figure_queue.FigureQueue method) add_files() (spacr.qt.widgets.import_workbench.ImportWorkbench method) add_filter() (spacr.qt.screens.make_masks.ObjectFilterList method) add_formula() (spacr.qt.widgets.formula_editor.FormulaPanel method) add_graph_style_file_entries() (in module spacr.qt.widgets.figure_settings) add_group_mark() (spacr.qt.widgets.fast_plots.FastPlot method) add_hook() (spacr.qt.widgets.preview_scale.PreviewScaler method) add_identity_columns() (in module spacr.schema) add_image() (spacr.layers.LayerStack method) (spacr.qt.widgets.plaque_preview.ContributeDialog method) add_image_file() (spacr.qt.layer_viewer.LayerViewer method) add_images_to_tar() (in module spacr.utils) add_item() (spacr.qt.screens.queue.QueueScreen method) add_job() (spacr.qt.screens.batch.BatchScreen method) add_labels() (spacr.layers.LayerStack method) add_labels_file() (spacr.qt.layer_viewer.LayerViewer method) add_line() (spacr.qt.widgets.fast_plots.FastPlot method) add_listener() (in module spacr.qt.gui_scale) (spacr.qt.widgets.foldable.Folder method) add_mask_folder() (spacr.qt.screens.foreign.ForeignScreen method) add_organelle() (spacr.qt.widgets.object_settings_grid.ObjectSettingsGrid method) add_over_column() (spacr.qt.widgets.column_aligned_row.ColumnAlignedRow method) add_pane() (spacr.qt.widgets.collapsible_splitter.CollapsibleSplitter method) add_panel() (spacr.qt.comparison_grid.ComparisonGrid method) add_path() (spacr.layers.ShapesLayer method) add_paths() (spacr.qt.widgets.external_mask_inputs.ExternalMaskInputWidget method) (spacr.qt.widgets.file_list.FilePathListWidget method) (spacr.qt.widgets.measure_input_table.MeasureInputTable method) add_paths_for_side() (spacr.qt.widgets.file_list.PairedFileTableWidget method) add_points() (spacr.layers.LayerStack method) add_polygon() (spacr.layers.ShapesLayer method) add_prose() (spacr.qt.widgets.section.Section method) add_prose_row() (spacr.qt.widgets.section.Section method) add_radar() (spacr.qt.widgets.fast_plots.FastPlot method) add_random_complement() (spacr.qt.widgets.class_editor.ClassEditorWidget method) add_ranked_bars() (spacr.qt.widgets.fast_plots.FastPlot method) add_rectangle() (spacr.layers.ShapesLayer method) add_root() (spacr.qt.screens.project_browser.ProjectBrowserScreen method) add_row() (spacr.qt.widgets.section.Section method) add_scatter() (spacr.qt.widgets.fast_plots.FastPlot method) add_screen_column() (in module spacr.schema) add_section() (spacr.qt.widgets.collapsible_splitter.CollapsibleSplitter method) (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) add_shapes() (spacr.layers.LayerStack method) add_smoother() (spacr.qt.widgets.fast_plots.FastPlot method) add_sources() (spacr.qt.widgets.database_set.DatabaseSetWidget method) add_style_entries() (in module spacr.qt.widgets.fast_plots) add_style_file_entries() (in module spacr.qt.widgets.fast_plots) add_title_action() (spacr.qt.widgets.card.Card method) add_to_viewer() (in module spacr.napari_bridge) add_toolbar_action() (spacr.qt.screens.make_masks.MakeMasksScreen method) add_trailing() (spacr.qt.screens.app_screen.ModuleHeader method) add_trailing_widget() (spacr.qt.settings_search.SettingsSearchBar method) add_typed_class() (spacr.qt.widgets.class_editor.ClassEditorWidget method) add_widget() (spacr.qt.widgets.section.Section method) add_world() (spacr.layers.PointsLayer method) (spacr.qt.roi_tool.RoiPen method) addItem() (spacr.qt.widgets.column_aligned_row.ColumnAlignedRow method) (spacr.qt.widgets.flow.FlowLayout method) additions (spacr.updater.DryRun property) addWidget() (spacr.qt.widgets.collapsible_splitter.CollapsibleSplitter method) adjust_cell_masks() (in module spacr.utils) adjust_p_values() (in module spacr.multiple_testing) adjusted_rand_index() (in module spacr.model_compare) adjusted_value_label() (in module spacr.guide_permutation) adopt() (spacr.qt.chaining.ChainingBar method) (spacr.qt.widgets.drawer.EdgeDrawer method) (spacr.qt.widgets.preview_controls.ImageSetSampler method) (spacr.runctx.RunContext method) adopt_runtime_pane() (spacr.qt.screens.app_screen.AppScreen method) advance() (spacr.qt.widgets.dna_rain.DnaRainEngine method) (spacr.qt.widgets.fractal_mandelbrot.SteeringCamera method) (spacr.qt.widgets.fractal_travel.DepthPhase method) (spacr.qt.widgets.loading_screen.LoadingScreen method) advance_frame() (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) advance_spaceout_drift() (in module spacr.qt.theme) advanced_object_of() (in module spacr.settings) Advice (class in spacr.settings_advisor) advice() (spacr.qt.widgets.settings_advisor_dialog.SettingsAdvisorDialog method) advise() (in module spacr.settings_advisor) advise_that_runs() (in module spacr.settings_advisor) advise_the_screen() (in module spacr.settings_advisor) aggregation_for() (in module spacr.merge_tables) aggregation_plan() (in module spacr.merge_tables) AggregationRulesDialog (class in spacr.qt.widgets.aggregation_rules) agreed (spacr.schema.ColumnCollision property) agreed_at() (in module spacr.qt.terms) agreed_to_terms() (spacr.qt.widgets.setup_slides.SetupSlides method) agreed_version() (in module spacr.qt.terms) Agreement (class in spacr.attribution) (class in spacr.nonparametric_fits) agreement() (in module spacr.nonparametric_fits) agreement_record() (in module spacr.qt.terms) agreement_report() (in module spacr.agreement) AgreementReport (class in spacr.agreement) AgreementScreen (class in spacr.qt.screens.agreement) ai_color_for_provider() (in module spacr.qt.widgets.console_panel) ai_explanation_of() (spacr.qt.widgets.console_panel.ConsolePanel method) AIChatPanel (class in spacr.qt.widgets.ai_chat_panel) aim_at() (spacr.qt.widgets.fractal_mandelbrot.SteeringCamera method) AiToggleLabel (class in spacr.qt.widgets.ai_toggle_label) alert() (spacr.qt.widgets.foldable.Folder method) align_by_triangles() (in module spacr.ops_merge) align_download_buttons() (spacr.qt.widgets.file_list.PairedFileTableWidget method) align_field() (in module spacr.ops_cycles) align_folder() (in module spacr.align) align_phenotype_to_sbs() (in module spacr.ops_phenotype) align_row_to_columns() (in module spacr.qt.widgets.column_aligned_row) align_side_panel() (spacr.qt.screens.gate_editor.GateEditorScreen method) AlignDropHandler (class in spacr.qt.dnd_handlers) AlignedField (class in spacr.ops_cycles) AlignError Alignment (class in spacr.ops_phenotype) alignment() (spacr.qt.widgets.setup_card.SetupCard method) AlignPlan (class in spacr.align) AlignResult (class in spacr.align) AlignScreen (class in spacr.qt.screens.align) alive() (in module spacr.qt.button_roles) all() (spacr.artifacts.Registry method) all_columns() (spacr.qt.screens.db_browser.PreviewModel method) all_elements_match() (in module spacr.utils) all_items (spacr.curation_queue.CurationQueue property) all_pixmaps() (spacr.qt.widgets.figure_queue.FigureQueue method) all_text() (spacr.qt.screens.power.CaveatPanel method) ambient_default_palette() (in module spacr.qt.preferences) ambient_for() (in module spacr.qt.night_themes) AmbientWidget (class in spacr.qt.widgets.ambient) ambiguous (spacr.chaining.DropResolution property) ambiguous_identifiers() (in module spacr.plate_measurements) AmbiguousAxisOrderError AmbiguousZAxisError analyse() (in module spacr.qt.resonance) analyse_long_gene_table() (in module spacr.guide_permutation) analyse_long_guide_table() (in module spacr.guide_permutation) analysis_path_for() (in module spacr.qt.resonance) analyze_activation_maps() (in module spacr.deep_spacr) analyze_calcium_oscillations() (in module spacr.timelapse) analyze_class_proportion() (in module spacr.submodules) analyze_endodyogeny() (in module spacr.submodules) analyze_host_pathogen() (in module spacr.host_pathogen) analyze_invasion() (in module spacr.submodules) analyze_percent_positive() (in module spacr.submodules) analyze_plaques() (in module spacr.submodules) analyze_recruitment() (in module spacr.submodules) analyze_replication() (in module spacr.submodules) anchor() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) anchor_axis() (spacr.qt.widgets.gate_editor.GateCanvas method) (spacr.qt.widgets.gate_editor.GateEditorPanel method) anchor_column() (in module spacr.object_roles) anchor_plane() (spacr.qt.widgets.gate_editor.GateCanvas method) anchor_tables() (in module spacr.qt.widgets.measurement_scan_panel) anchors_for() (in module spacr.sudoku) angles_from_axes() (in module spacr.qt.widgets.volume_view) animates() (spacr.qt.widgets.setup_card.SetupCard method) animation() (spacr.qt.widgets.hover_tooltip.HoverTooltip method) animation_choice() (spacr.qt.widgets.setup_slides.SetupSlides method) ANIMATION_DOCS_BASE (in module spacr.setting_animations) animation_for_setting() (in module spacr.setting_animations) animation_label() (in module spacr.qt.widgets.ambient) animation_link() (spacr.qt.widgets.hover_tooltip.HoverTooltip method) animation_note() (in module spacr.qt.widgets.ambient) animation_path_for_setting() (in module spacr.setting_animations) animation_view() (spacr.qt.widgets.hover_tooltip.HoverTooltip method) ANIMATIONS (in module spacr.qt.widgets.make_masks_help) animations_by_setting() (in module spacr.setting_animations) animations_shown() (spacr.qt.widgets.hover_tooltip.HoverTooltip method) anndata_export_settings() (in module spacr.anndata_export) AnnDataExtraMissing annotatable() (in module spacr.annotation_power) annotate() (in module spacr.annotation) (in module spacr.figures.style) annotate_conditions() (in module spacr.utils) annotate_crops() (in module spacr.qt.widgets.measure_preview) annotate_example_destination() (spacr.qt.screens.app_screen.AppScreen method) annotate_figure() (in module spacr.qt.widgets.plaque_preview) annotate_filter_vision() (in module spacr.deep_spacr) annotate_from_gates() (in module spacr.filters) (spacr.qt.screens.gate_editor.GateEditorScreen method) annotate_predictions() (in module spacr.utils) annotate_read() (in module spacr.barcode_search) annotate_regions() (in module spacr.plaque_papers) annotate_results() (in module spacr.guide_concordance) annotate_the_cells() (spacr.qt.widgets.cell_montage_view.CellMontageView method) annotated (spacr.regression_annotation.Prepared property) AnnotateDropHandler (class in spacr.qt.dnd_handlers) AnnotateScreen (class in spacr.qt.screens.annotate) AnnotateSettings (class in spacr.qt.annotate_engine) Annotation (class in spacr.plaque_papers) annotation_batch() (in module spacr.qt.annotate_engine) annotation_column_of() (in module spacr.classify_classes) annotation_columns() (in module spacr.agreement) (spacr.qt.widgets.gene_panel.GenePanel method) annotation_coverage() (in module spacr.active_learning) annotation_for() (in module spacr.uniprot) AnnotationPlan (class in spacr.omero) AnnotationRequest (class in spacr.regression_annotation) AnnotationResult (class in spacr.omero) (class in spacr.regression_annotation) AnnotationStrategyError AnnotationStrategyPanel (class in spacr.qt.widgets.annotation_strategy_panel) AnnotationUmapTab (class in spacr.qt.widgets.annotation_umap_tab) announce_pipeline_finished() (in module spacr.qt.notify) announce_run_end() (in module spacr.qt.sound) answer_question() (spacr.qt.screens.image_import.ImageImportScreen method) answer_text() (spacr.qt.screens.power.PowerScreen method) answered (spacr.regression_summary.SummaryField property) answered_version() (in module spacr.qt.setup_screen) AnswerModel (class in spacr.qt.screens.image_import) answers() (spacr.qt.screens.image_import.AnswerModel method) (spacr.qt.widgets.settings_advisor_dialog.QuestionsPage method) (spacr.qt.widgets.setup_dialog.SetupDialog method) (spacr.qt.widgets.setup_slides.SetupSlides method) aogm_costs() (in module spacr.timeflows_baseline) api_docs_url() (in module spacr.qt.screens.settings_model) api_entries() (in module spacr.qt.help_index) api_link() (spacr.qt.widgets.availability_panel.AvailabilityPanel method) (spacr.qt.widgets.hover_tooltip.HoverTooltip method) api_url() (in module spacr.qt.help_search) (spacr.qt.widgets.hover_tooltip.HoverTooltip method) APICOMPLEXAN_LABELS (in module spacr.qt.widgets.organism_diagram) ApiEntryDialog (class in spacr.qt.help_search) ApiHelpLabel (class in spacr.qt.widgets.api_help_label) app_icon() (in module spacr.qt.iconset) app_is_visible() (in module spacr.qt.app) app_key (spacr.qt.bridge.PipelineWorker property) app_stage() (in module spacr.qt.app)

AppContribution (class in spacr.plugins) appearance (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView property) appeared (spacr.run_compare.HitDiff property) append() (spacr.curation.CurationLog method) (spacr.layers.LayerStack method) (spacr.qt.widgets.training_monitor.TrainingMonitor method) append_database() (in module spacr.sim) append_error() (spacr.qt.widgets.console_panel.ConsolePanel method) append_notice() (spacr.qt.widgets.console_panel.ConsolePanel method) append_rows() (spacr.qt.screens.db_browser.PreviewModel method) append_stdout() (spacr.qt.widgets.console_panel.ConsolePanel method) append_warning() (spacr.qt.widgets.console_panel.ConsolePanel method) applicable_methods() (in module spacr.attribution) application() (in module spacr.figures.headless) applied_fields (spacr.illumination.SegmentationIlluminationSession property) applied_values() (spacr.qt.widgets.picture_settings_dialog.PictureSettingsDialog method) applies_to() (in module spacr.picture_settings) applies_to_picking() (in module spacr.picture_settings) apply() (in module spacr.baseline) (in module spacr.figure_style) (in module spacr.outlier_filter) (in module spacr.qt.laptop_mode) (in module spacr.qt.maturity) (in module spacr.qt.setup_screen) (spacr.foreign.ResolvedColumn method) (spacr.layers.Blending static method) (spacr.ops_phenotype.Alignment method) (spacr.psf_pipeline.PSFPlan method) (spacr.qt.dnd.DropHandler method) (spacr.qt.dnd_handlers.AlignDropHandler method) (spacr.qt.dnd_handlers.AnnotateDropHandler method) (spacr.qt.dnd_handlers.BatchDropHandler method) (spacr.qt.dnd_handlers.ClassifyDropHandler method) (spacr.qt.dnd_handlers.ConvertDropHandler method) (spacr.qt.dnd_handlers.DatabaseDropHandler method) (spacr.qt.dnd_handlers.EvaluationBundleDropHandler method) (spacr.qt.dnd_handlers.ExplainCvInputsDropHandler method) (spacr.qt.dnd_handlers.ExternalMasksDropHandler method) (spacr.qt.dnd_handlers.ForeignProjectDropHandler method) (spacr.qt.dnd_handlers.ImageFieldsDropHandler method) (spacr.qt.dnd_handlers.ImageImportDropHandler method) (spacr.qt.dnd_handlers.InvestigateHitInputsDropHandler method) (spacr.qt.dnd_handlers.LayoutDropHandler method) (spacr.qt.dnd_handlers.MakeMasksDropHandler method) (spacr.qt.dnd_handlers.MapBarcodesDropHandler method) (spacr.qt.dnd_handlers.MaskDropHandler method) (spacr.qt.dnd_handlers.MeasureDropHandler method) (spacr.qt.dnd_handlers.MeasurementsDropHandler method) (spacr.qt.dnd_handlers.MethodsSourcesDropHandler method) (spacr.qt.dnd_handlers.ModelZooDropHandler method) (spacr.qt.dnd_handlers.PlaqueDropHandler method) (spacr.qt.dnd_handlers.PlateQueueDropHandler method) (spacr.qt.dnd_handlers.RegressionDropHandler method) (spacr.qt.dnd_handlers.ReportDropHandler method) (spacr.qt.dnd_handlers.ResultsDatabaseDropHandler method) (spacr.qt.dnd_handlers.RunHistoryDropHandler method) (spacr.qt.dnd_handlers.SourceDropHandler method) (spacr.qt.dnd_handlers.SubmissionSettingsDropHandler method) (spacr.qt.dnd_handlers.SweepInputsDropHandler method) (spacr.qt.dnd_handlers.TrainingRunsDropHandler method) (spacr.qt.prerun.DiameterPanel method) (spacr.qt.settings_search.SettingsSearchBar method) (spacr.qt.sound.SoundEngine method) (spacr.qt.widgets.formula.FormulaSet method) (spacr.qt.widgets.preview_scale.PreviewScaler method) (spacr.selection.DataFilter method) apply_all() (spacr.qt.dnd.DropHandler method) (spacr.qt.dnd_handlers.CellposeFolderDropHandler method) (spacr.qt.dnd_handlers.MakeMasksDropHandler method) (spacr.qt.dnd_handlers.PlaqueDropHandler method) apply_ambient_preferences() (in module spacr.qt.preferences) apply_augmentation() (in module spacr.io) apply_canvas_dpi() (in module spacr.qt.gui_scale) apply_cellpose_model() (in module spacr.submodules) apply_chain() (in module spacr.psf_pipeline) apply_choices() (in module spacr.qt.install_consent) apply_close_mark() (in module spacr.qt.theme) apply_column_text_scale() (spacr.qt.widgets.console_panel.ConsolePanel method) apply_console_levels() (in module spacr.qt.verbose_logger) apply_crop_dtype() (in module spacr.normalization) apply_cutoffs() (in module spacr.qt.widgets.gate_canvas) apply_default_style() (in module spacr.qt.widgets.fast_plots) apply_defaults() (in module spacr.runctx) apply_display() (spacr.qt.widgets.umap_explorer.ImageUmapExplorer method) apply_dock_mode() (spacr.qt.app.MainWindow method) apply_figure_style() (in module spacr.qt.preferences) apply_filter() (spacr.qt.screens.db_browser.DbBrowserScreen method) apply_filters() (in module spacr.qt.mask_engine) apply_gates() (spacr.qt.screens.map_barcodes.CategoryFoldSet method) apply_graph_style() (in module spacr.qt.widgets.figure_settings) apply_import() (in module spacr.image_import) apply_level_policy() (in module spacr.logging_util) apply_mask() (in module spacr.utils) apply_model() (in module spacr.deep_spacr) apply_model_to_tar() (in module spacr.deep_spacr) apply_night_theme() (in module spacr.qt.preferences) apply_object_filter() (spacr.qt.screens.make_masks.MakeMasksScreen method) apply_object_grid_preference() (spacr.qt.screens.app_screen.AppScreen method) apply_organelle_presets_from_mapping() (spacr.qt.screens.settings_model.SettingsWidgets method) apply_overrides() (in module spacr.cli) (in module spacr.plaque_papers) apply_page() (in module spacr.style_base) apply_plot_state() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) apply_preferences_to_app() (in module spacr.qt.preferences) apply_preprocessing_hooks() (in module spacr.measure_hooks) apply_preset() (in module spacr.organelle_types) apply_primary_call() (in module spacr.regression_panels) apply_proposal() (spacr.qt.screens.map_barcodes.BarcodeSearchPanel method) apply_psf() (in module spacr.point_spread) apply_qpalette() (in module spacr.qt.theme) apply_quality_preset() (in module spacr.qt.preferences) apply_recipe() (in module spacr.qt.recipes) apply_regex() (in module spacr.qt.regex_detect) apply_region_filter_hooks() (in module spacr.measure_hooks) apply_release_news() (spacr.qt.widgets.home.HomePage method) apply_releases() (spacr.qt.widgets.home.NewsPanel method) apply_sample_to_combo() (in module spacr.qt.widgets.preview_controls) apply_saved_controls() (in module spacr.qt.widgets.fractal_travel) apply_saved_gui_scale() (in module spacr.qt.gui_scale) apply_screen (spacr.qt.screens.train_cellpose.CellposeWorkbenchScreen property) apply_seed() (in module spacr.qt.screens.activation) (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.model_explanation.InvestigateHitScreen method) (spacr.qt.screens.train_cellpose.CellposeWorkbenchScreen method) apply_selected() (spacr.qt.screens.hyperparam.HyperparamPanel method) apply_settings() (spacr.qt.screens.align.AlignScreen method) (spacr.qt.screens.gate_editor.GateEditorScreen method) (spacr.qt.screens.hyperparam.HyperparamPanel method) (spacr.qt.widgets.gate_editor.GateCanvas method) (spacr.qt.widgets.gate_editor.GateEditorPanel method) (spacr.qt.widgets.gate_search_panel.GateSearchPanel method) (spacr.qt.widgets.host_pathogen_preview.HostPathogenPreviewPanel method) (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) apply_settings_dict() (spacr.qt.screens.app_screen.AppScreen method) (spacr.qt.screens.measure_inputs.MeasureInputsScreen method) (spacr.qt.screens.train_cellpose.CellposeWorkbenchScreen method) apply_settings_that_came_with() (spacr.qt.screens.app_screen.AppScreen method) apply_sound_preferences() (in module spacr.qt.sound) apply_style_dict() (in module spacr.qt.widgets.fast_plots) apply_stylesheet_per_window() (in module spacr.qt.theme) apply_text_style() (spacr.qt.widgets.fast_plots.FastPlot method) apply_theme() (spacr.qt.widgets.dna_rain.DnaRainWidget method) (spacr.qt.widgets.dna_rain_settings.DnaRainSettingsPopover method) (spacr.qt.widgets.dock.Dock method) apply_to_figure() (in module spacr.qt.widgets.umap_figure_settings) apply_transformation() (in module spacr.ml) apply_variant() (in module spacr.qt.import_demo) apply_verbose_logging() (in module spacr.qt.verbose_logger) apply_worker_budget() (in module spacr.qt.bridge) apply_workspace_preference() (in module spacr.qt.preferences) apply_workspace_state() (spacr.qt.screens.app_screen.AppScreen method) (spacr.qt.widgets.cell_montage_view.CellMontageView method) (spacr.qt.widgets.database_set.DatabaseSetWidget method) (spacr.qt.widgets.figure_grid_view.FigureGridView method) (spacr.qt.widgets.regression_results.RegressionResultsPanel method) apply_zoom() (spacr.qt.widgets.console_panel.ConsolePanel method) approved_report() (spacr.qt.ai.issue_preview.IssuePreviewDialog method) apps_root() (in module spacr._starplast) AppScreen (class in spacr.qt.screens.app_screen) AppTile (class in spacr.qt.widgets.home) architecture_kind() (in module spacr.attribution) archive (spacr.example_archives.ExampleSet property) archive() (in module spacr.data_manager) ArchiveError ArchiveItem (class in spacr.data_manager) ArchivePlan (class in spacr.data_manager) ArchiveResult (class in spacr.data_manager) area_mm2() (spacr.plaque.PlaqueScale method) arithmetic() (spacr.cell_montage.MontagePlan method) arm() (spacr.qt.widgets.drawer.EdgeDrawer method) arrangement_of() (in module spacr.image_stitch) array() (spacr.io.LazyCropPNG method) (spacr.point_spread.PSF method) ArrayedHitResult (class in spacr.sp_stats) arrays() (spacr.qt.widgets.segmentation_views.SegmentationViews method) arrow_cursor() (in module spacr.qt.widgets.cursor_policy) arrow_scale (spacr.qt.widgets.pca_view.PCAScoresCanvas property) arrow_scale() (in module spacr.qt.widgets.pca_view) Artifact (class in spacr.artifacts) artifact_at() (spacr.data_manager.ProjectUsage method) artifact_dir (spacr.checkpoint.CheckpointStore property) artifact_of() (spacr.run_compare.RunRef method) artifact_path() (spacr.checkpoint.CheckpointStore method) as_dict() (spacr.multi_database.MergeDecision method) (spacr.plaque.Well method) (spacr.qt.widgets.plaque_preview.OverlayStyle method) (spacr.roi.RegionOfInterest method) (spacr.roi.RoiSet method) (spacr.sequencing_qc.ThresholdChoice method) (spacr.style_base.FigureStyle method) as_image() (in module spacr.qt.widgets.picture_export) as_key_index() (in module spacr.selection) as_probabilities() (in module spacr.active_learning) as_rows() (spacr.hyperparam.SearchResult method) as_selection() (spacr.selection.ObjectRequest method) as_settings() (spacr.settings_advisor.Advice method) as_settings_keys() (in module spacr.qt.widgets.umap_explorer) as_t_first() (in module spacr.zstack) as_text() (spacr.qt.screens.qc_dashboard.QCDashboardScreen method) (spacr.qt.widgets.console_panel.ConsolePanel method) (spacr.updater.InstallOffer method) ask() (spacr.qt.widgets.gate_console.GateConsole method) ask_axis_cutoffs() (spacr.qt.screens.gate_editor.GateEditorScreen method) ask_community_consent() (in module spacr.qt.widgets.model_share_dialog) ask_for_a_database_column() (in module spacr.qt.ask_for_the_path) ask_for_a_folder() (in module spacr.qt.ask_for_the_path) ask_for_files() (spacr.qt.widgets.import_workbench.ImportWorkbench method) ask_for_layout() (spacr.qt.widgets.plate_map_picker.PlateMapPicker method) ask_how_to_quit() (in module spacr.qt.shutdown) ask_refit() (in module spacr.qt.widgets.refit_dialog) (spacr.qt.widgets.regression_results.RegressionResultsPanel method) ask_where_to_save() (in module spacr.qt.widgets.picture_export) asks() (spacr.qt.widgets.object_settings_grid.ObjectSettingsModel method) aspect_ratio() (spacr.qt.widgets.fast_plots.FastPlot method) assert_run_complete() (in module spacr.errors) assess_image() (in module spacr.image_quality) assessed_keys() (in module spacr.qt.maturity) assets_for() (in module spacr.screen_data) assign_classes() (in module spacr.classify_classes) assign_colors() (in module spacr.utils) assign_file() (spacr.qt.widgets.measure_input_table.MeasureInputTable method) assign_missing_fields() (in module spacr.qt.folder_metadata) assign_paths_by_regex() (in module spacr.measure) assign_reads_to_cells() (in module spacr.ops_sbs) assign_reads_to_objects() (in module spacr.ops_sbs) assign_well() (in module spacr.guide_attribution) assign_wells() (in module spacr.convert) (in module spacr.qt.widgets.plate_layout) Assignment (class in spacr.guide_attribution) Assumption (class in spacr.figures.stats) ast (spacr.qt.widgets.formula.ColumnFormula property) at() (spacr.layers.OrthoViews method) (spacr.profiler.Profile method) (spacr.qt.mask_engine.ObjectLookup method) (spacr.qt.resonance.Resonance method) at_depth() (spacr.layers.Canvas method) (spacr.layers.CanvasLink method) at_pixel() (spacr.layers.OrthoViews method) at_the_end() (spacr.qt.widgets.console_panel.ConsolePanel method) atomic_torch_save() (in module spacr.torch_artifacts) attach() (in module spacr.figures.sheet) (spacr.qt.screens.activation.ExplainNavigator method) attach_activity_spinner() (in module spacr.qt.widgets.activity_spinner) attach_api_tooltip() (in module spacr.qt.screens.settings_model) attach_brush() (spacr.qt.screens.curate.CurateScreen method) attach_column_picker() (in module spacr.qt.widgets.column_picker) attach_database() (spacr.qt.widgets.file_list.PairedFileTableWidget method) attach_folded() (in module spacr.qt.preview_registry) attach_movie_panel() (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) attach_output() (spacr.run_journal.Run method) attach_per_class_columns() (in module spacr.deep_spacr) attach_sql_picker() (spacr.qt.widgets.class_editor.ClassEditorWidget method) attached (spacr.qt.widgets.measurement_scan_panel.AttachedDatabase property) attached_databases() (in module spacr.qt.widgets.measurement_scan_panel) AttachedDatabase (class in spacr.qt.widgets.measurement_scan_panel) attempts_for() (spacr.runctx.ErrorPolicy method) attention_rollout() (in module spacr.attribution) attributable() (in module spacr.guide_attribution) attribute() (in module spacr.attribution) attribute_reads() (in module spacr.ops_sbs) attribute_well() (in module spacr.guide_attribution) Attribution (class in spacr.attribution) (class in spacr.guide_attribution) attribution_text() (in module spacr.qt.space) AttributionError AttributionMapGenerator (class in spacr.attribution) AttributionWriteError auc_of() (in module spacr.qt.widgets.feature_rank) audio_thread() (spacr.qt.sound.SoundEngine method) audit_cv_folds() (in module spacr.classifier_evaluation) audit_dataset_splits() (in module spacr.classifier_evaluation) audit_datasets() (in module spacr.timeflows_qc) audit_flags (spacr.qt.widgets.qc_field_browser.QCFieldTarget property) audit_label_consistency() (in module spacr.timeflows_qc) audit_split_leakage() (in module spacr.classifier_evaluation) augment_classes() (in module spacr.utils) augment_dataset() (in module spacr.utils) augment_image() (in module spacr.utils) augment_images() (in module spacr.utils) augment_pair() (in module spacr.timeflows_model) augment_pair.apply() (in module spacr.timeflows_model) augment_single_image() (in module spacr.utils) augmentation_family() (in module spacr.classifier_evaluation) auth_mode (spacr.omero.OmeroConnection property) auth_source() (in module spacr.qt.ai.github_auth) auto_contrast() (spacr.layers.ImageLayer method) auto_detect_regex() (in module spacr.qt.regex_detect) auto_figure_colors() (in module spacr.qt.preferences) auto_filed_url() (in module spacr.qt.ai.settings) auto_range_axes() (spacr.qt.widgets.fast_plots.FastPlot method) autocast_device_type() (in module spacr.accelerator) autocasting() (in module spacr.deep_spacr) autocorrelation() (in module spacr.permutation_qc) automated_motility_assay() (in module spacr.timelapse) automatic (spacr.qt.ai.cli_install.InstallPlan property) AUTOMATIC_BOX_THICKNESS (in module spacr.qt.widgets.plaque_preview) Availability (class in spacr.qt.ai.manuscript) availability() (in module spacr.qt.ai.manuscript) availability_entries() (in module spacr.regression_backends) availability_entry() (in module spacr.gpu_reduce) (in module spacr.regression_backends) AvailabilityPanel (class in spacr.qt.widgets.availability_panel) available (spacr.run_compare.CountDiff property) (spacr.run_compare.HitDiff property) available() (in module spacr.columns) (in module spacr.figures.panels) (in module spacr.gene_facts) (in module spacr.qt.terms_i18n) (spacr.qt.widgets.pca_view.FeaturePicker method) available_arrays() (in module spacr.picture_settings) available_backends() (in module spacr.ops_register) (in module spacr.power_model) (in module spacr.surrogate) available_colormaps() (in module spacr.qt.widgets.umap_search_viewer) available_columns() (spacr.qt.screens.agreement.AgreementScreen method) (spacr.qt.widgets.data_filter_panel.DataFilterPanel method) available_coordinate_columns() (in module spacr.picture_settings) available_keys() (in module spacr.qt.imagery) available_memory() (in module spacr.mixed_gpu) available_memory_bytes() (in module spacr.benchmark) available_metrics() (in module spacr.train_compare) (spacr.qt.screens.train_compare.TrainCompareScreen method) available_tables() (in module spacr.plate_measurements) available_text_width() (spacr.qt.widgets.eliding.ElidingLabel method) (spacr.qt.widgets.eliding.ElidingPushButton method) available_worker_count() (in module spacr.qt.bridge) average_over_cycles() (in module spacr.ops_sample) average_precision (spacr.scorecard.Match property) average_precision() (in module spacr.scorecard) axes (spacr.image_import.InferredLayout property) (spacr.layers.Layer property) (spacr.layers.OrthoViews property) axes_are_comparable() (spacr.qt.widgets.trellis_spec.Trellis method) axes_at() (spacr.qt.widgets.graph_builder.GraphCanvas method) axes_from_spacing() (in module spacr.ome_zarr) Axis (class in spacr.ome_zarr) axis_at() (in module spacr.qt.widgets.gate_canvas) axis_column() (spacr.qt.screens.gate_editor.GateEditorScreen method) axis_frame() (in module spacr.qt.widgets.umap_search_viewer) axis_index() (spacr.layers.Spacing method) axis_items() (spacr.qt.widgets.fast_plots.FastPlot method) axis_layout() (in module spacr.qt.widgets.figure_grid) axis_limits() (spacr.qt.widgets.fast_plots.FastPlot method) axis_menu_items() (in module spacr.qt.widgets.gate_canvas) (spacr.qt.screens.gate_editor.GateEditorScreen method) axis_names (spacr.ome_zarr.OmeZarrImage property) axis_order (spacr.zstack.TStackSpec property) axis_ratio (spacr.plaque.Well property) (spacr.plaque_papers.Region property) axis_under() (spacr.qt.screens.gate_editor.GateEditorScreen method) AxisCutoff (class in spacr.qt.widgets.gate_canvas) AxisCutoffs (class in spacr.qt.widgets.gate_canvas) AxisMenuItem (class in spacr.qt.widgets.gate_canvas) AxisOrder (class in spacr.zstack)

B

b_scores() (in module spacr.sp_stats) backdrop() (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) backdrop_is_switched_off() (in module spacr.qt.preferences) backend (spacr.zstack.TStackSpec property) backend_available() (in module spacr.qt.widgets.timelapse_preview) backend_choices() (in module spacr.regression_backends) backend_for() (in module spacr.gpu_reduce) backend_install_offer() (in module spacr.regression_backends) backend_label() (in module spacr.regression_backends) backend_menu() (in module spacr.regression_backends) backend_of() (in module spacr.qt.widgets.regression_results) backend_row() (in module spacr.qt.model_install) backend_rows() (in module spacr.qt.model_install) backend_status() (in module spacr.regression_backends) backend_supports() (in module spacr.regression_backends) BackendInstallDialog (class in spacr.qt.widgets.model_zoo_picker) BACKENDS (in module spacr.power_model) backends() (spacr.umap_search.SearchTable method) background_color() (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) background_from_controls() (in module spacr.read_background) background_path() (in module spacr.qt.imagery) (in module spacr.qt.space) background_surface() (in module spacr.qt.detect_chain) badge_colors() (in module spacr.qt.screens.annotate) banner_text() (spacr.qt.widgets.column_picker.ColumnPickerDialog method) bar (spacr.qt.widgets.dna_rain_settings.DnaRainSettingsPopover property) barcode_collisions() (in module spacr.sequencing_qc) barcode_colours() (in module spacr.qt.widgets.read_view) barcode_order() (spacr.barcode_search.BarcodeTable method) barcode_pool() (in module spacr.qt.synthetic) barcode_qc() (in module spacr.sequencing_qc) barcode_qc_defaults() (in module spacr.sequencing_qc) barcode_rows() (in module spacr.ops_sample) barcode_set_from_settings() (in module spacr.settings) BarcodeEntry (class in spacr.settings) BarcodeHit (class in spacr.barcode_search) BarcodeRegexDialog (class in spacr.qt.widgets.barcode_regex) BarcodeRegexResult (class in spacr.qt.widgets.barcode_regex) BarcodeRegexWidget (class in spacr.qt.widgets.barcode_regex) BarcodeSearchPanel (class in spacr.qt.screens.map_barcodes) BarcodeSearchPlan (class in spacr.qt.screens.map_barcodes) BarcodeSearchReport (class in spacr.barcode_search) BarcodeSet (class in spacr.settings) BarcodeSpan (class in spacr.qt.widgets.read_view) BarcodeTable (class in spacr.barcode_search) barecodes_reverse_complement() (in module spacr.sequencing) Baseline (class in spacr.baseline) baseline_chance() (in module spacr.annotation_validation) baseline_majority() (in module spacr.annotation_validation) baseline_plates (spacr.qt.widgets.control_chart.ControlChartResult property) baseline_violations (spacr.qt.widgets.control_chart.ControlChartResult property) BatchCorrectionReport (class in spacr.batch_correction) BatchDropHandler (class in spacr.qt.dnd_handlers) BatchScreen (class in spacr.qt.screens.batch) beat (spacr.qt.sound_synth.SoundTheme property) beat() (spacr.qt.widgets.setup_card.SetupCard method) bed_plan() (in module spacr.qt.sound_synth) BedBar (class in spacr.qt.sound_synth) beeswarm_frame() (spacr.qt.widgets.fast_plots.FastPlot method) begin() (in module spacr.qt.timing) begin_drag() (spacr.qt.widgets.plate_map_picker.PlateMapPicker method) begin_preview() (spacr.qt.widgets.preview_contract.LivePreviewContract method) begin_recording() (in module spacr.macro) begin_stroke() (spacr.curation.MaskCuration method) begin_topic() (spacr.qt.widgets.console_panel.ConsolePanel method) begin_view() (spacr.qt.widgets.collapsible_splitter.FocusCollapse method) begin_well_drag() (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) benchmark() (in module spacr.annotation_validation) (in module spacr.benchmark) (in module spacr.model_zoo) benchmark_against_statsmodels() (in module spacr.mixed_gpu) benchmark_rows() (spacr.qt.screens.model_zoo.ModelZooScreen method) BenchmarkController (class in spacr.qt.startup_benchmark) BenchmarkResult (class in spacr.model_zoo) benjamini_hochberg() (in module spacr.hits) best() (spacr.train_compare.Series method) (spacr.umap_search.SearchTable method) best_for_role() (spacr.barcode_search.BarcodeSearchReport method) best_reference_in_view() (in module spacr.qt.widgets.fractal_mandelbrot) best_threshold() (in module spacr.classifier_quality) beta_logit() (in module spacr.ml) between_object_types() (in module spacr.object_distances) bin_at() (spacr.qt.widgets.fast_plots.BinnedPlot method) bin_parasite_count() (in module spacr.object_classifier) binarise_response() (in module spacr.ml) Binary (class in spacr.qt.widgets.formula) bind() (spacr.qt.widgets.dna_rain.DnaRainSettingsBar method) (spacr.qt.widgets.home.RunningBanner method) (spacr.runctx.ErrorPolicy method) bind_field() (spacr.qt.widgets.primary_mask_selector.PrimaryMaskSelector method) Binding (class in spacr.chaining) binding_for() (in module spacr.chaining) BinnedPlot (class in spacr.qt.widgets.fast_plots) blend() (in module spacr.qt.widgets.dna_rain) Blending (class in spacr.layers) blending (spacr.layers.Layer property) bliss_surface() (in module spacr.qt.widgets.dose_response) block_residual_report() (in module spacr.permutation_qc) block_surface() (in module spacr.qt.theme) blocked (spacr.chaining.NextStep property) blockers (spacr.run_compare.Comparability property) blocking (spacr.run_compare.Finding property) blocking_conflicts (spacr.foreign.ImportPlan property) blocks_resume (spacr.resume.SettingsComparison property) blocks_shutdown (spacr.qt.bridge.PipelineWorker property) blur() (spacr.qt.widgets.ambient.AmbientWidget method) body_label() (spacr.qt.widgets.availability_panel.AvailabilityPanel method) border_color (spacr.layers.PointsLayer property) border_rules_agree() (in module spacr.infection) border_width (spacr.layers.PointsLayer property) born_off_thread() (in module spacr.qt.thread_guard) both_empty (spacr.model_compare.SegComparison property) both_levels_note() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) bottom (spacr.ops_compose.Window property) BOUND_ROWS (in module spacr.qt.widgets.live_preview) bound_statement() (spacr.qt.widgets.dose_response.DoseResponseResult method) boundary_f1() (in module spacr.scorecard) boundary_f1_score() (in module spacr.utils) boundary_mask() (in module spacr.qt.widgets.fractal_mandelbrot) boundary_of() (in module spacr.qt.widgets.segmentation_views) bounding_box_only() (in module spacr.picture_settings)

bounds() (spacr.qt.widgets.gate_spec.PolygonGate method) (spacr.qt.widgets.height_grip.HeightGrip method) bounds_in() (spacr.qt.widgets.gate_spec.RectGate method) box_from_view() (spacr.qt.widgets.gate_editor.GateCanvas method) box_heights() (spacr.qt.widgets.measurement_scan_panel.WorkflowSteps method) box_overlap() (in module spacr.qt.mask_engine) box_thickness_for() (in module spacr.qt.widgets.plaque_preview) boxed_picture() (in module spacr.qt.widgets.plaque_preview) BoxGate (class in spacr.qt.widgets.gate_spec) brain_cousens() (in module spacr.qt.widgets.dose_response) breakdown_by() (in module spacr.confusion) brightest_window() (in module spacr.qt.imagery) browse() (in module spacr.projects) browse_for_results() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) brush() (spacr.qt.widgets.graph_builder.GraphCanvas method) (spacr.qt.widgets.trellis_spec.Trellis method) (spacr.qt.widgets.trellis_view.TrellisCanvas method) brush_index() (spacr.layers.LabelsLayer method) brush_mask() (in module spacr.qt.widgets.graph_spec) BrushPanel (class in spacr.qt.curation_tool) BrushTool (class in spacr.qt.curation_tool) BudgetSweep (class in spacr.qt.resource_cleanup) build() (in module spacr.gene_measurement_compare) (in module spacr.qt.screens.activation) (spacr.confusion.ConfusionCell class method) (spacr.qt.plate_queue.QueueItem class method) (spacr.qt.screens.methods_export.MethodsExportScreen method) (spacr.qt.widgets.cell_montage_view.CellMontageView method) (spacr.schema.FieldID class method) build_anndata() (in module spacr.anndata_export) build_barcode_search_card() (in module spacr.qt.screens.map_barcodes) build_comparison_screen() (spacr.qt.screens.model_zoo.ModelZooScreen method) build_context() (in module spacr.regression_qc) build_digest() (in module spacr.methods_export) build_every_selected() (spacr.qt.widgets.cell_montage_view.CellMontageView method) build_example() (in module spacr.host_pathogen_example) build_fast_plot() (in module spacr.figures.fast_render) build_figure_context_menu() (in module spacr.qt.widgets.figure_settings) build_filters_frame() (in module spacr.filters) build_filters_from_relationships() (in module spacr.filters) build_folds() (in module spacr.hyperparam) build_forest() (in module spacr.lineage) build_graph() (in module spacr.pipeline_graph) build_hit_cell_frame() (in module spacr.hit_attribution) build_hit_list() (in module spacr.hits) build_host_pathogen_preview_card() (in module spacr.qt.widgets.host_pathogen_preview) build_hyperparam_card() (in module spacr.qt.screens.hyperparam) build_index() (in module spacr.qt.help_index) build_level_menu() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) build_loss() (in module spacr.utils) build_manifest_packages() (in module spacr.regression_panels) build_master() (in module spacr.qt.imagery) build_masters() (in module spacr.qt.imagery) build_menu() (in module spacr.qt.widgets.picture_export) build_metadata_request() (in module spacr.metadata_resolution) build_methods_export() (in module spacr.qt.screens.regression) build_model_card() (in module spacr.deep_spacr) build_model_from_configuration() (in module spacr.torch_artifacts) build_motility_preview_card() (in module spacr.qt.widgets.motility_preview) build_movie_field() (in module spacr.qt.widgets.timelapse_preview) build_panel() (in module spacr.figures.distributions) (in module spacr.figures.sheet) build_panel_figure() (in module spacr.qt.screens.hyperparam) build_parameter_sweep_card() (in module spacr.qt.screens.parameter_sweep) build_parser() (in module spacr.cli) (in module spacr.cli_database) (in module spacr.cli_download) (in module spacr.cli_leakage) (in module spacr.cli_make_masks) (in module spacr.cli_plugins) (in module spacr.cli_remote) (in module spacr.crashreport) (in module spacr.doctor) (in module spacr.install_profile) build_plan() (in module spacr.cli_download) (spacr.qt.screens.align.AlignScreen method) build_plaque_preview_card() (in module spacr.qt.widgets.plaque_preview) build_plate_plan() (in module spacr.intensity_rescale) build_plates() (in module spacr.figures.plates) build_png_channels() (in module spacr.crops) build_point_table() (in module spacr.qt.widgets.motility_preview) build_profile() (in module spacr.install_profile) build_publication_figure() (in module spacr.qt.screens.regression) build_queue() (in module spacr.active_learning) (in module spacr.curation_queue) build_registered_screen() (in module spacr.qt.screens.map_barcodes) build_relationships_frame() (in module spacr.filters) build_report() (in module spacr.qt.ai.issue_report) (in module spacr.report) build_run_summary() (in module spacr.regression_summary) build_scene() (in module spacr.figures.scene) build_screen() (in module spacr.qt.screens.train_cellpose) build_sections() (spacr.qt.screens.settings_model.SettingsWidgets method) build_selection() (in module spacr.stream_dataset) build_settings_screen() (in module spacr.qt.screens.map_barcodes) build_sheet() (in module spacr.figures.sheet) build_sklearn_model() (in module spacr.hyperparam) build_steps() (in module spacr.qt.walkthrough) build_strip() (spacr.qt.screens.map_barcodes.CategoryFoldSet method) build_style_menu() (spacr.qt.widgets.fast_plots.FastPlot method) (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) build_surrogate_frame() (in module spacr.surrogate) build_timelapse_preview_card() (in module spacr.qt.widgets.timelapse_preview) build_trials() (in module spacr.parameter_sweep) build_update() (in module spacr.qt.screens.db_browser) build_where() (in module spacr.qt.screens.db_browser) bundled_barcode_path() (in module spacr.settings) bundled_faces() (in module spacr.figure_font) bundled_icon_path() (in module spacr.qt.iconset) bundled_icon_paths() (in module spacr.qt.iconset) busy (spacr.qt.annotate_engine.SaveWorker property) button() (spacr.qt.widgets.plaque_preview.PlaqueModeSwitch method) button_accent_text() (in module spacr.qt.theme) button_direction() (in module spacr.qt.widgets.glass) button_for() (spacr.qt.widgets.fold_strip.FoldStrip method) by_field() (spacr.pipeline_v2.FilenameMapper method) by_key() (spacr.run_compare.HitList method) by_kind() (in module spacr.artifacts) (spacr.artifacts.Registry method) by_module() (spacr.pipeline_graph.PipelineGraph method) by_project() (in module spacr.artifacts) (spacr.artifacts.Registry method) by_units() (spacr.feature_dict.ConditionalUnit method)

C

c4() (in module spacr.qt.widgets.control_chart) Cache (class in spacr.utils) cache_budget_entries() (in module spacr.qt.annotate_engine) (spacr.qt.crop_thumbs.CropThumbnails method) (spacr.qt.widgets.figure_queue.FigureQueue method) cache_dir() (in module spacr.qt.space) cache_folder() (in module spacr.example_data) cache_name() (in module spacr.qt.imagery) (in module spacr.qt.space) calculate_activation_correlations() (in module spacr.utils) calculate_iou() (in module spacr.utils) calculate_loss() (in module spacr.utils) calculate_p_values() (in module spacr.ml) calculate_permutation_importance() (in module spacr.sim) calculate_shortest_distance() (in module spacr.utils) calibrate_from_file() (spacr.qt.widgets.image_ruler.ImageRuler method) Calibration (class in spacr.qt.widgets.motility_preview) calibration() (in module spacr.annotation_validation) (in module spacr.trial_metrics) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) calibration_curve() (in module spacr.regression_qc) calibration_table() (in module spacr.classifier_evaluation) Call (class in spacr.qt.widgets.formula) call_feature() (in module spacr.custom_features) call_hits() (in module spacr.sp_stats) call_reads() (in module spacr.ops_sbs) called (spacr.guide_attribution.Attribution property) called() (spacr.sudoku.SudokuResult method) called_bases() (in module spacr.ops_sbs) cam_type_applicability() (in module spacr.attribution) cam_type_choices() (in module spacr.attribution) CameraState (class in spacr.qt.widgets.fractal_travel) can_accept() (spacr.qt.dnd.DropHandler method) (spacr.qt.dnd_handlers.AlignDropHandler method) (spacr.qt.dnd_handlers.AnnotateDropHandler method) (spacr.qt.dnd_handlers.BatchDropHandler method) (spacr.qt.dnd_handlers.CellposeFolderDropHandler method) (spacr.qt.dnd_handlers.ClassifyDropHandler method) (spacr.qt.dnd_handlers.ConvertDropHandler method) (spacr.qt.dnd_handlers.DatabaseDropHandler method) (spacr.qt.dnd_handlers.EvaluationBundleDropHandler method) (spacr.qt.dnd_handlers.ExplainCvInputsDropHandler method) (spacr.qt.dnd_handlers.ExternalMasksDropHandler method) (spacr.qt.dnd_handlers.ForeignProjectDropHandler method) (spacr.qt.dnd_handlers.ImageFieldsDropHandler method) (spacr.qt.dnd_handlers.ImageImportDropHandler method) (spacr.qt.dnd_handlers.InvestigateHitInputsDropHandler method) (spacr.qt.dnd_handlers.LayoutDropHandler method) (spacr.qt.dnd_handlers.MakeMasksDropHandler method) (spacr.qt.dnd_handlers.MapBarcodesDropHandler method) (spacr.qt.dnd_handlers.MaskDropHandler method) (spacr.qt.dnd_handlers.MeasureDropHandler method) (spacr.qt.dnd_handlers.MeasurementsDropHandler method) (spacr.qt.dnd_handlers.MethodsSourcesDropHandler method) (spacr.qt.dnd_handlers.ModelZooDropHandler method) (spacr.qt.dnd_handlers.PlaqueDropHandler method) (spacr.qt.dnd_handlers.PlateQueueDropHandler method) (spacr.qt.dnd_handlers.ProjectFolderDropHandler method) (spacr.qt.dnd_handlers.RegressionDropHandler method) (spacr.qt.dnd_handlers.ReportDropHandler method) (spacr.qt.dnd_handlers.RunHistoryDropHandler method) (spacr.qt.dnd_handlers.SourceDropHandler method) (spacr.qt.dnd_handlers.SubmissionSettingsDropHandler method) (spacr.qt.dnd_handlers.SweepInputsDropHandler method) (spacr.qt.dnd_handlers.TrainingRunsDropHandler method) can_convert() (spacr.qt.screens.convert.ConvertScreen method) can_import() (spacr.qt.screens.foreign.ForeignScreen method) (spacr.qt.screens.image_import.ImageImportScreen method) can_install_packages() (in module spacr.qt.model_install) can_preview() (spacr.qt.widgets.preview_contract.LivePreviewContract method) can_redo() (spacr.qt.mask_engine.MaskHistory method) can_undo (spacr.curation.MaskCuration property) can_undo() (spacr.qt.mask_engine.MaskHistory method) cancel() (spacr.cancellation.CancellationToken method) (spacr.qt.ai.worker.StreamWorker method) (spacr.qt.job_runner.JobRunner method) (spacr.qt.model_install.CheckpointDownload method) (spacr.qt.model_install.PackageInstall method) (spacr.qt.roi_tool.RoiPen method) (spacr.qt.screens.power.PowerScreen method) (spacr.qt.widgets.cli_setup_panel.CliSetupPanel method) (spacr.qt.widgets.measurement_scan_panel.ColumnRegressionPanel method) (spacr.remote_execution.RemoteJobManager method) cancel_ai() (spacr.qt.widgets.console_panel.ConsolePanel method) cancel_all() (spacr.qt.bridge.RunRegistry method) cancel_download() (spacr.qt.screens.model_zoo.ModelZooScreen method) cancel_hide() (spacr.qt.widgets.availability_panel.AvailabilityPanel method) (spacr.qt.widgets.hover_tooltip.HoverTooltip method) cancel_interactive() (in module spacr.qt.timing) cancel_load() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) cancel_loading() (spacr.qt.widgets.cell_montage_view.CellMontageView method) cancel_merge() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) cancel_preview() (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.preview_contract.LivePreviewContract method) cancel_search() (spacr.qt.screens.map_barcodes.BarcodeSearchPanel method) cancel_selected() (spacr.qt.screens.distributed_jobs.DistributedJobsScreen method) cancel_stream() (spacr.qt.ai.providers.ChatProvider method) cancel_the_join() (spacr.qt.widgets.measurement_compare_dialog.MeasurementCompareDialog method) (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) cancellation_requested() (in module spacr.cancellation) CancellationToken (class in spacr.cancellation) cancelled (spacr.cancellation.CancellationToken property) candidate_columns() (in module spacr.classify_classes) candidate_concentration_columns() (in module spacr.qt.widgets.dose_response) candidate_feature_columns() (in module spacr.regression_annotation) candidate_features() (in module spacr.qt.widgets.feature_rank) (in module spacr.qt.widgets.outlier_model) (in module spacr.qt.widgets.pca_model) candidate_key_columns() (in module spacr.qt.widgets.control_chart) candidate_labels() (in module spacr.qt.widgets.feature_rank) candidate_response_columns() (in module spacr.qt.widgets.dose_response) candidate_roots() (in module spacr.chaining) (in module spacr.portable_paths) candidate_score() (in module spacr.qt.widgets.fractal_mandelbrot) candidate_value_columns() (in module spacr.qt.widgets.control_chart) canFetchMore() (spacr.qt.screens.db_browser.PreviewModel method) canonical() (in module spacr.thresholds) (in module spacr.uniprot) canonical_column_name() (in module spacr.schema) canonical_feature_selection() (in module spacr.settings) canonical_labels() (in module spacr.qt.mask_engine) canonical_magnifier_mode() (in module spacr.qt.screens.make_masks) canonical_method() (in module spacr.multiple_testing) canonical_name() (in module spacr.image_import) canonical_package_name() (in module spacr.updater) canonical_plate_id() (in module spacr.schema) canonical_property() (in module spacr.qt.mask_engine) canonical_rename_plan() (in module spacr.schema) canonicalise_columns() (in module spacr.schema) canonicalise_frame() (in module spacr.schema) canonicalize_measurement_columns() (in module spacr.utils) Canvas (class in spacr.layers) canvas (spacr.ops_stitch.StitchedWell property) (spacr.qt.layer_viewer.LayerCanvas property) (spacr.qt.ortho_view.OrthoPanel property) canvas() (spacr.layers.LayerStack method) canvas_agrees() (spacr.ops_stitch.StitchedWell method) canvas_bytes (spacr.align.AlignPlan property) canvas_link (spacr.qt.comparison_grid.ComparisonGrid property) canvas_ratio() (spacr.qt.widgets.fast_plots.FastPlot method) canvas_shape() (spacr.qt.widgets.fast_plots.FastPlot method) canvas_yx() (spacr.align.CanvasSpec method) canvases() (spacr.layers.CanvasLink method) (spacr.layers.OrthoViews method) CanvasLink (class in spacr.layers) CanvasSpec (class in spacr.align) CanvasTool (class in spacr.qt.layer_viewer) cap_region_from_seed() (in module spacr.qt.wand_rescue) capabilities() (in module spacr.accelerator) capped (spacr.cell_montage.MontagePlan property) (spacr.crop_loader.CropPlan property) caption() (in module spacr.response_distribution) (spacr.cell_montage.MontagePlan method) (spacr.qt.widgets.fast_plots.VolcanoPlot method) caption_text() (spacr.qt.widgets.cell_montage_view.CellMontageView method) capture_recipe() (in module spacr.qt.recipes) capture_rng_state() (in module spacr.torch_artifacts) Card (class in spacr.qt.widgets.card) card() (in module spacr.qt.widgets.model_share) (spacr.qt.widgets.qc_summary.Dashboard method) carried_setting_keys() (in module spacr.qt.screens.train_cellpose) carries_tonal_structure() (in module spacr.qt.iconset) carry() (spacr.qt.screens.train_cellpose.CellposeWorkbenchScreen method) carry_trained_model() (spacr.qt.screens.train_cellpose.CellposeWorkbenchScreen method) CascadeEngine (class in spacr.qt.widgets.fractal_cascade) catalog_coverage() (in module spacr.qt.i18n) catalogue() (in module spacr.model_zoo) categorical_colours() (in module spacr.qt.widgets.graph_builder) categories() (in module spacr.picture_settings) categories_for_app() (in module spacr.qt.screens.settings_model) category (spacr.qt.settings_diff.DiffRow property) category() (spacr.qt.settings_diff.SettingsDiff method) category_of() (in module spacr.picture_settings) category_tooltip() (in module spacr.qt.screens.settings_model) category_tooltip_is_curated() (in module spacr.qt.screens.settings_model) CategoryDiff (class in spacr.qt.settings_diff) CategoryFilter (class in spacr.selection) CategoryFold (class in spacr.qt.screens.map_barcodes) CategoryFoldSet (class in spacr.qt.screens.map_barcodes) Caveat (class in spacr.qt.widgets.power_design) caveat() (spacr.qt.widgets.motility_preview.Calibration method) caveat_text() (spacr.qt.screens.power.PowerScreen method) CaveatPanel (class in spacr.qt.screens.power) caveats() (spacr.qt.widgets.control_chart.ControlChartResult method) (spacr.qt.widgets.dose_response.DoseResponseResult method) (spacr.qt.widgets.outlier_model.OutlierResult method) (spacr.qt.widgets.pca_model.PCAResult method) cell_background_path() (in module spacr.qt.preferences) cell_caption() (in module spacr.qt.widgets.figure_grid) cell_level_roc_auc() (in module spacr.sim) cell_probability() (in module spacr.qt.widgets.segmentation_views) cell_rect() (spacr.qt.screens.plate_view.PlateGridWidget method) cell_rows() (in module spacr.confusion) cell_size (spacr.qt.widgets.dna_rain.DnaRainEngine property) cell_span() (in module spacr.qt.widgets.figure_grid_view) cell_text() (spacr.qt.widgets.pivot_builder.PivotTable method) CellMontageView (class in spacr.qt.widgets.cell_montage_view) Cellpose3Checkpoint cellpose_channel_axis() (in module spacr.spacr_cellpose) cellpose_detect() (in module spacr.qt.screens.make_masks) cellpose_gpu() (in module spacr.accelerator) cellpose_intermediates() (in module spacr.qt.screens.make_masks) cellpose_kwargs() (in module spacr.accelerator) cellpose_live_model_menu() (in module spacr.settings) cellpose_model_choices() (in module spacr.settings) cellpose_model_menu() (in module spacr.settings) cellpose_rescale() (in module spacr.spacr_cellpose) CellposeFolderDropHandler (class in spacr.qt.dnd_handlers) CellposeLazyDataset (class in spacr.submodules) CellposeSamFeatures (class in spacr.timeflows_model) CellposeWorkbenchScreen (class in spacr.qt.screens.train_cellpose) CELLPROB_COLORMAP (in module spacr.qt.widgets.segmentation_views) cellprob_heatmap() (in module spacr.qt.screens.make_masks) cells_across() (in module spacr.qt.widgets.figure_grid_view) cells_grid() (in module spacr.qt.widgets.power_design) cellvoyager_filename() (in module spacr.qt.synthetic) central_contribute() (in module spacr.qt.widgets.model_share) central_upload() (in module spacr.qt.widgets.model_share) centre() (spacr.qt.widgets.gate_spec.BoxGate method) (spacr.qt.widgets.gate_spec.CompositeGate method) (spacr.qt.widgets.gate_spec.CylinderGate method) (spacr.qt.widgets.gate_spec.EllipseGate method) (spacr.qt.widgets.gate_spec.Gate method) (spacr.qt.widgets.gate_spec.PolygonGate method) (spacr.qt.widgets.gate_spec.PrismGate method) (spacr.qt.widgets.gate_spec.RectGate method) (spacr.qt.widgets.gate_spec.ThresholdGate method) (spacr.qt.widgets.gate_spec.ViewGate method) centre_on_controls() (in module spacr.ml) centre_y (spacr.flowview.layout.NodeLayout property) centroids (spacr.measure_hooks.RegionContext property) Chain (class in spacr.qt.detect_chain) chain_problems() (in module spacr.psf_pipeline) chain_settings() (in module spacr.qt.detect_chain) chained_app_keys() (in module spacr.qt.chaining) chained_inputs() (in module spacr.chaining) ChainedInput (class in spacr.chaining) chaining_bar() (in module spacr.qt.chaining) ChainingBar (class in spacr.qt.chaining) change_scales() (in module spacr.qt.gui_scale) changed (spacr.database_schema.MigrationReport property) (spacr.run_compare.CountDiff property) (spacr.run_compare.CountRow property) changeEvent() (spacr.qt.app.MainWindow method) (spacr.qt.screens.app_screen.AppScreen method) (spacr.qt.screens.map_barcodes.BarcodeSearchPanel method) (spacr.qt.widgets.ai_toggle_label.AiToggleLabel method) (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.height_grip.HeightGrip method) (spacr.qt.widgets.organism_diagram.OrganismDiagram method) (spacr.qt.widgets.read_view.ReadView method) (spacr.qt.widgets.section.Section method) (spacr.qt.widgets.usage_bar.UsageBar method) changes_the_number() (in module spacr.qt.widgets.power_design) channel() (spacr.ome_zarr.Axis class method) channel_axis (spacr.ome_zarr.OmeZarrImage property) channel_data() (spacr.layers.ImageLayer method) channel_is_visible() (spacr.layers.ImageLayer method) channel_labels() (in module spacr.qt.widgets.preview_controls) channel_names (spacr.layers.ImageLayer property) channel_of_column() (in module spacr.embeddings) channel_view() (in module spacr.qt.widgets.preview_controls) ChannelMappingWidget (class in spacr.qt.widgets.channel_mapping) ChannelPicker (class in spacr.qt.widgets.channel_picker) channels (spacr.omero.ContainerListing property) (spacr.qt.widgets.graph_spec.GraphSpec property) (spacr.qt.widgets.preview_controls.ImageSetSampler property) channels_from_settings() (in module spacr.diameter) ChatProvider (class in spacr.qt.ai.providers) check() (spacr.curation.TrackCuration method) (spacr.layers.Blending static method) check_analysis_lock() (in module spacr.run_journal) check_and_clean_data() (in module spacr.ml) check_cellpose_models() (in module spacr.spacr_cellpose) check_columns() (spacr.qt.screens.db_browser.ReadOnlyDb method) check_design() (in module spacr.qt.widgets.plate_layout) check_distribution() (in module spacr.ml) check_draft() (in module spacr.methods_export) check_equal_variance() (in module spacr.figures.stats) check_files() (in module spacr.workspace) check_for_updates() (in module spacr.updater) check_index() (in module spacr.utils) check_mask_folder() (in module spacr.utils) check_model() (in module spacr.model_check) check_multicollinearity() (in module spacr.utils) check_normality() (in module spacr.figures.stats) (in module spacr.ml) (in module spacr.utils) check_overlap() (in module spacr.utils) check_pair_holdout() (in module spacr.timeflows_validation) check_ready() (in module spacr.ports) check_settings() (in module spacr.settings) check_settings_compatible() (in module spacr.resume) check_signed_in() (spacr.qt.ai.providers.CommandLineTool method) check_starplast_update() (in module spacr._starplast) check_table() (spacr.qt.screens.db_browser.ReadOnlyDb method) Checkerboard (class in spacr.qt.widgets.dose_response) checkerboard_from_frame() (in module spacr.qt.widgets.dose_response) checkpoint() (in module spacr.cancellation) (in module spacr.qt.bridge) (spacr.cancellation.CancellationToken method) checkpoint_policy() (in module spacr.classification_pixels) CheckpointDownload (class in spacr.qt.model_install) CheckpointError CheckpointMismatch CheckpointStore (class in spacr.checkpoint) checksum_state (spacr.model_zoo.ModelEntry property) ChecksumMismatch chefer_relevance() (in module spacr.attribution) chi_pairwise() (in module spacr.sp_stats) child_tables() (in module spacr.lineage) children() (spacr.qt.widgets.gate_spec.GateSet method) chip_editor() (in module spacr.qt.widgets.column_picker) Choice (class in spacr.settings_advisor) choices() (spacr.qt.install_consent.InstallerConsentDialog method) choose_anchor() (in module spacr.filters) choose_destination() (spacr.qt.screens.data_manager.DataManagerScreen method) choose_export() (spacr.qt.screens.control_chart.ControlChartScreen method) (spacr.qt.screens.feature_explorer.FeatureExplorerScreen method) choose_format() (in module spacr.qt.widgets.picture_export) choose_hit_export() (spacr.qt.screens.control_chart.ControlChartScreen method) choose_import_test_data() (in module spacr.qt.import_demo) choose_load_filters() (spacr.qt.screens.gate_editor.GateEditorScreen method) choose_load_gates() (spacr.qt.screens.gate_editor.GateEditorScreen method) choose_model() (in module spacr.qt.widgets.model_zoo_picker) (in module spacr.utils) choose_model_for() (spacr.qt.widgets.object_settings_grid.ObjectSettingsGrid method) choose_one_dialog() (in module spacr.qt.dnd) choose_p_adjust_method() (in module spacr.sp_stats) choose_path() (spacr.qt.screens.embeddings.EmbeddingsScreen method) choose_project() (spacr.qt.screens.data_manager.DataManagerScreen method) choose_root() (spacr.qt.screens.project_browser.ProjectBrowserScreen method) choose_sample() (in module spacr.qt.make_masks_datasets) choose_save_filters() (spacr.qt.screens.gate_editor.GateEditorScreen method) choose_save_gates() (spacr.qt.screens.gate_editor.GateEditorScreen method) choose_screen_data() (in module spacr.qt.widgets.screen_data_picker) choose_source_folder() (spacr.qt.screens.app_screen.AppScreen method) choose_sources() (spacr.qt.widgets.database_set.DatabaseSetWidget method) choose_table() (spacr.qt.screens.control_chart.ControlChartScreen method) (spacr.qt.screens.dose_response.DoseResponseScreen method) (spacr.qt.screens.feature_explorer.FeatureExplorerScreen method) (spacr.qt.screens.gate_editor.GateEditorScreen method) (spacr.qt.screens.graph_builder.GraphBuilderScreen method) (spacr.qt.screens.outliers.OutliersScreen method) (spacr.qt.screens.pca.PCAScreen method) (spacr.qt.screens.tabulate.TabulateScreen method) (spacr.qt.screens.trellis.TrellisScreen method) choose_the_test_data() (spacr.qt.screens.app_screen.AppScreen method) choose_wells() (spacr.qt.widgets.measurement_compare_dialog.MeasurementCompareDialog method) (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) chord_tones() (in module spacr.qt.sound_synth) chosen() (spacr.qt.make_masks_datasets.DatasetPicker method) (spacr.qt.widgets.mask_comparison.MaskComparisonDialog method) (spacr.qt.widgets.refit_dialog.RefitDialog method) (spacr.qt.widgets.screen_data_picker.ScreenDataPicker method) chosen_column() (spacr.qt.widgets.column_picker.ColumnPickerDialog method) chosen_columns() (spacr.qt.widgets.column_picker.ColumnPickerDialog method) chosen_entry() (spacr.qt.screens.model_zoo.ModelZooScreen method) chosen_files() (spacr.qt.widgets.sra_picker.SraPicker method) chosen_for() (in module spacr.graph_types) chosen_ink() (in module spacr.figures.style) chosen_line_ink() (in module spacr.figures.style) chosen_path() (spacr.qt.widgets.model_zoo_picker.ModelZooPicker method) chosen_regex() (spacr.qt.widgets.import_workbench.ImportWorkbenchDialog method) chosen_table() (spacr.qt.widgets.column_picker.ColumnPickerDialog method) chosen_wells() (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) chrome_mask() (in module spacr.qt.widgets.animation_zoom) (spacr.qt.widgets.animation_zoom.ZoomedAnimation method) chrome_of() (in module spacr.figure_style) chunk() (spacr.qt.screens.db_browser.ReadOnlyDb method) chunk_sql() (spacr.qt.screens.db_browser.ReadOnlyDb method) churn (spacr.run_compare.HitDiff property) circuit() (spacr.qt.widgets.setup_card.SetupCard method) circularity_warning() (in module spacr.annotation_umap_qc) claim() (in module spacr.qt.gil_priority) clamp() (in module spacr.qt.fractal_defaults) (in module spacr.qt.widgets.fractal_travel) clamp_console_to_file() (in module spacr.logging_util) clamp_preview_scale() (in module spacr.qt.widgets.preview_scale) clamp_width() (spacr.qt.widgets.dock.Dock method) clamped() (spacr.layers.OrthoViews method) class_counts() (in module spacr.qt.annotate_engine) class_for_shortcut() (spacr.counting.CountingSession method) class_labels() (in module spacr.deep_spacr) class_metadata_of() (in module spacr.classify_classes) class_names (spacr.counting.CountingSession property) class_names() (in module spacr.classify_classes) class_rules() (in module spacr.classify_classes) class_sampling_weights() (in module spacr.io) class_scores() (in module spacr.attribution) class_visualization() (in module spacr.utils) ClassChip (class in spacr.qt.widgets.class_editor) ClassDefinitionError ClassEditorWidget (class in spacr.qt.widgets.class_editor) classes (spacr.counting.CountingSession property) classification_metrics() (in module spacr.utils) classifier() (in module spacr.sim) ClassifierEvaluationScreen (class in spacr.qt.screens.classifier_evaluation) ClassifierFamilyError classify() (in module spacr.bystanders) (in module spacr.classify) (in module spacr.column_groups) (in module spacr.qt.ai.cli_install) classify_columns() (in module spacr.qt.widgets.data_filter_panel) classify_cv_fit_fn() (in module spacr.hyperparam) classify_default_columns() (in module spacr.plate_measurements) classify_failure() (in module spacr.batch) classify_graph() (in module spacr.flowview.classify_blueprint) classify_kind() (in module spacr.model_zoo) classify_objects() (in module spacr.object_classifier) ClassifyDropHandler (class in spacr.qt.dnd_handlers) ClassRule (class in spacr.classify_classes) ClassScoreModel (class in spacr.attribution) ClassSummary (class in spacr.qt.widgets.feature_rank) claude_path() (in module spacr.qt.widgets.provider_marks) ClaudeCliProvider (class in spacr.qt.ai.providers) clause_for() (spacr.qt.widgets.gate_spec.GateSet method) clean_controls() (in module spacr.ml) clean_line() (in module spacr.qt.ai.cli_install) cleanup() (spacr.io.spacrDataLoader method) cleanup_pipeline_folders() (in module spacr.utils) clear() (spacr.chaining.PinStore method) (spacr.counting.CountingSession method) (spacr.flowview.thumbs.ThumbnailCache method) (spacr.layers.LayerStack method) (spacr.qt.bridge.RunRegistry method) (spacr.qt.counting_tool.CountingPanel method) (spacr.qt.crop_thumbs.CropThumbnails method) (spacr.qt.mask_engine.MaskHistory method) (spacr.qt.plate_queue.PlateQueue method) (spacr.qt.screens.db_browser.PreviewModel method) (spacr.qt.screens.plate_view.PlateGridWidget method) (spacr.qt.widgets.cell_montage_view.CellMontageView method) (spacr.qt.widgets.console_panel.ConsolePanel method) (spacr.qt.widgets.data_filter_panel.DataFilterPanel method) (spacr.qt.widgets.database_set.DatabaseSetWidget method) (spacr.qt.widgets.figure_grid.SearchFigureGrid method) (spacr.qt.widgets.figure_grid_view.FigureGridView method) (spacr.qt.widgets.figure_queue.FigureQueue method) (spacr.qt.widgets.file_list.FilePathListWidget method) (spacr.qt.widgets.formula.FormulaSet method) (spacr.qt.widgets.formula_editor.FormulaPanel method) (spacr.qt.widgets.gate_canvas.AxisCutoffs method) (spacr.qt.widgets.gate_spec.GateSet method) (spacr.qt.widgets.gene_panel.GenePanel method) (spacr.qt.widgets.gene_tile.GeneTilePanel method) (spacr.qt.widgets.image_ruler.ImageRuler method) (spacr.qt.widgets.measure_input_table.MeasureInputTable method) (spacr.qt.widgets.pivot_builder.DropWell method) (spacr.qt.widgets.read_view.ReadView method) (spacr.qt.widgets.training_monitor.TrainingMonitor method) (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView method) (spacr.selection.DataFilter method) clear_all() (spacr.qt.widgets.gate_canvas.AxisCutoffs method) clear_axis_cutoffs() (spacr.qt.screens.gate_editor.GateEditorScreen method) clear_cache() (in module spacr.annotation) (in module spacr.gene_facts) (in module spacr.qt.imagery) (in module spacr.qt.space) (in module spacr.qt.widgets.animation_zoom) clear_category_hint() (spacr.qt.screens.app_screen.AppScreen method) clear_channels() (spacr.qt.widgets.graph_builder.GraphBuilderPanel method) (spacr.qt.widgets.trellis_view.TrellisPanelWidget method) clear_chat() (spacr.qt.widgets.ai_chat_panel.AIChatPanel method) clear_column() (in module spacr.qt.annotate_engine) clear_column_mapping() (spacr.qt.widgets.fast_plots.FastPlot method) clear_components() (spacr.qt.widgets.organism_diagram.OrganismDiagram method) clear_container_surfaces() (in module spacr.qt.theme) clear_cpu() (in module spacr.qt.resource_cleanup) clear_crop_format_cache() (in module spacr.crops) clear_dashboard_watermark() (in module spacr.qt.preferences) clear_diagnostics() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) clear_field() (spacr.qt.widgets.primary_mask_selector.PrimaryMaskSelector method) clear_field_cache() (in module spacr.crops) clear_field_rows() (in module spacr.resume) clear_figure_style_default() (in module spacr.qt.preferences) clear_filter() (spacr.qt.linked_selection.LinkedSelection method) (spacr.qt.screens.db_browser.DbBrowserScreen method) clear_finished() (spacr.qt.plate_queue.PlateQueue method) clear_highlight() (spacr.qt.widgets.fast_plots.FastPlot method) clear_image() (spacr.qt.widgets.zoom_view.ZoomableImageView method) clear_linked_selection() (spacr.qt.linked_selection.LinkedView method) clear_list() (spacr.qt.widgets.home.RecentRunsPanel method) clear_mask() (in module spacr.qt.mask_engine) (spacr.qt.screens.make_masks.MakeMasksScreen method) clear_mask_folders() (spacr.qt.screens.foreign.ForeignScreen method) clear_measurement_hooks() (in module spacr.measure_hooks) clear_now_playing() (in module spacr.qt.resonance) clear_object_request() (spacr.qt.screens.annotate.AnnotateScreen method) clear_pending() (spacr.qt.widgets.gate_editor.GateCanvas method) clear_picking_override() (spacr.qt.widgets.cell_montage_view.CellMontageView method) clear_plot() (spacr.qt.widgets.annotation_umap_tab.PurityScatter method) clear_providers() (in module spacr.workspace) clear_queue() (spacr.qt.widgets.home.QueuedPanel method) clear_ram() (in module spacr.qt.resource_cleanup) clear_result() (spacr.qt.widgets.annotation_umap_tab.AnnotationUmapTab method) clear_rois() (spacr.qt.roi_tool.RoiPanel method) clear_run_metadata_decisions() (in module spacr.metadata_resolution) clear_sampled() (spacr.flowview.collector.Collector method) clear_screen_size() (spacr.qt.widgets.fast_plots.FastPlot method) clear_selection() (spacr.qt.linked_selection.LinkedSelection method) clear_sink() (in module spacr.figure_sink) clear_the_containers() (in module spacr.qt.widgets.glass) clear_vram() (in module spacr.qt.resource_cleanup) clear_widget_qss_overlays() (in module spacr.qt.theme) clear_y_split() (spacr.qt.widgets.fast_plots.FastPlot method) clipped_items() (spacr.qt.widgets.dock.Dock method) CliSetupPanel (class in spacr.qt.widgets.cli_setup_panel) close() (spacr.io.LazyCropPNG method) (spacr.qt.widgets.drawer.EdgeDrawer method) close_feature_dictionary() (in module spacr.qt.widgets.feature_dictionary) close_file_descriptors() (in module spacr.utils) close_folded() (spacr.qt.screens.make_masks.MakeMasksScreen method) close_mark_button() (in module spacr.qt.theme) close_mark_colours() (in module spacr.qt.theme) close_mark_font_px() (in module spacr.qt.theme) close_mark_rules() (in module spacr.qt.theme) close_mark_side() (in module spacr.qt.theme) close_multiprocessing_processes() (in module spacr.utils) close_polygon() (spacr.qt.widgets.gate_editor.GateCanvas method) close_polygon_now() (spacr.qt.widgets.gate_editor.GateCanvas method) close_run_beside() (spacr.qt.screens.app_screen.AppScreen method) close_shape() (spacr.qt.roi_tool.RoiPen method) close_viewer() (spacr.qt.screens.make_masks.NapariBridgeScreen method) closed (spacr.io.LazyCropPNG property) (spacr.qt.sound.SoundEngine property) closeEvent() (spacr.qt.app.MainWindow method) (spacr.qt.comparison_grid.ComparisonGrid method) (spacr.qt.counting_tool.CountingPanel method) (spacr.qt.curation_tool.BrushPanel method) (spacr.qt.layer_viewer.LayerViewer method) (spacr.qt.ortho_view.OrthoView method) (spacr.qt.roi_tool.RoiPanel method) (spacr.qt.screens.agreement.AgreementScreen method) (spacr.qt.screens.annotate.AnnotateScreen method) (spacr.qt.screens.app_screen.AppScreen method) (spacr.qt.screens.classifier_evaluation.ClassifierEvaluationScreen method) (spacr.qt.screens.control_chart.ControlChartCanvas method) (spacr.qt.screens.control_chart.ControlChartScreen method) (spacr.qt.screens.curate.CurateScreen method) (spacr.qt.screens.data_manager.ConfirmDeleteDialog method) (spacr.qt.screens.data_manager.DataManagerScreen method) (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.distributed_jobs.DistributedJobsScreen method) (spacr.qt.screens.dose_response.DoseResponseScreen method) (spacr.qt.screens.embeddings.EmbeddingsScreen method) (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) (spacr.qt.screens.feature_explorer.FeatureExplorerScreen method) (spacr.qt.screens.gate_editor.GateEditorScreen method) (spacr.qt.screens.graph_builder.GraphBuilderScreen method) (spacr.qt.screens.hit_list.HitListScreen method) (spacr.qt.screens.hyperparam.HyperparamPanel method) (spacr.qt.screens.hyperparam.UmapSearchSettingsDialog method) (spacr.qt.screens.image_scatter.ImageScatterScreen method) (spacr.qt.screens.lineage.LineageScreen method) (spacr.qt.screens.make_masks.MakeMasksScreen method) (spacr.qt.screens.make_masks.NapariBridgeScreen method) (spacr.qt.screens.map_barcodes.BarcodeSearchPanel method) (spacr.qt.screens.measure_inputs.MeasureInputsScreen method) (spacr.qt.screens.methods_export.MethodsExportScreen method) (spacr.qt.screens.model_compare.ModelCompareScreen method) (spacr.qt.screens.model_explanation.ExplainCvPanel method) (spacr.qt.screens.model_explanation.InvestigateHitPanel method) (spacr.qt.screens.model_zoo.ModelZooScreen method) (spacr.qt.screens.outliers.OutliersScreen method) (spacr.qt.screens.pca.PCAScreen method) (spacr.qt.screens.pipeline_graph.PipelineGraphScreen method) (spacr.qt.screens.plate_view.PlateViewScreen method) (spacr.qt.screens.power.PowerScreen method) (spacr.qt.screens.profiler.ProfilerScreen method) (spacr.qt.screens.project_browser.ProjectBrowserScreen method) (spacr.qt.screens.qc_dashboard.QCDashboardScreen method) (spacr.qt.screens.queue.QueueScreen method) (spacr.qt.screens.run_history.RunHistoryScreen method) (spacr.qt.screens.tabulate.TabulateScreen method) (spacr.qt.screens.train_cellpose.CellposeWorkbenchScreen method) (spacr.qt.screens.train_compare.TrainCompareScreen method) (spacr.qt.screens.trellis.TrellisScreen method) (spacr.qt.screensaver.Screensaver method) (spacr.qt.starplast.StarplastInstallDialog method) (spacr.qt.starplast.StarplastUpdateCheckDialog method) (spacr.qt.widgets.ai_chat_panel.AIChatPanel method) (spacr.qt.widgets.annotation_strategy_panel.AnnotationStrategyPanel method) (spacr.qt.widgets.cell_montage_view.CellMontageView method) (spacr.qt.widgets.console_panel.ConsolePanel method) (spacr.qt.widgets.database_set.DatabaseSetWidget method) (spacr.qt.widgets.fast_plots.FastPlot method) (spacr.qt.widgets.feature_explorer.FeatureExplorerPanel method) (spacr.qt.widgets.figure_queue.FigureQueue method) (spacr.qt.widgets.figure_settings.FigureSettingsDialog method) (spacr.qt.widgets.gate_editor.GateEditorPanel method) (spacr.qt.widgets.gene_panel.GenePanel method) (spacr.qt.widgets.graph_builder.GraphBuilderPanel method) (spacr.qt.widgets.graph_builder.GraphCanvas method) (spacr.qt.widgets.home.HomePage method) (spacr.qt.widgets.host_pathogen_preview.HostPathogenPreviewPanel method) (spacr.qt.widgets.import_workbench.ImportWorkbench method) (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.live_preview.LiveSettingsDialog method) (spacr.qt.widgets.measure_preview.CropSettingsDialog method) (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) (spacr.qt.widgets.measurement_scan_panel.ColumnRegressionPanel method) (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) (spacr.qt.widgets.model_zoo_picker.BackendInstallDialog method) (spacr.qt.widgets.model_zoo_picker.ModelZooPicker method) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) (spacr.qt.widgets.pca_view.PCAPanel method) (spacr.qt.widgets.pivot_builder.PivotPanel method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) (spacr.qt.widgets.qc_field_browser.QCFieldBrowser method) (spacr.qt.widgets.regression_results.RegressionResultsPanel method) (spacr.qt.widgets.row_exclusion.RowExclusionEditor method) (spacr.qt.widgets.sweep_panel.SweepPanel method) (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) (spacr.qt.widgets.trellis_view.TrellisPanelWidget method) (spacr.qt.widgets.umap_explorer.ImageUmapExplorer method)

cluster_count() (spacr.umap_search.SearchRow method) cluster_embedding() (in module spacr.umap_search) cluster_feature_analysis() (in module spacr.utils) cluster_selected() (spacr.qt.screens.hyperparam.HyperparamPanel method) cluster_walk_sizes() (spacr.qt.screens.hyperparam.HyperparamPanel method) ClusterWalkRow (class in spacr.umap_search) coco_image_names() (in module spacr.mask_io) coco_to_masks() (in module spacr.mask_io) CodexCliProvider (class in spacr.qt.ai.providers) Coefficient (class in spacr.cell_montage) coefficient_frame() (in module spacr.profiler) coefficient_from_frame() (in module spacr.qt.widgets.cell_montage_view) coefficient_level() (in module spacr.cell_montage) coefficient_levels() (in module spacr.hits) coefficient_threshold() (in module spacr.thresholds) CoefficientNotFound CoefficientsDropHandler (class in spacr.qt.dnd_handlers) coerce_for_column() (in module spacr.qt.screens.db_browser) coerce_model_feature_types() (in module spacr.schema) coerce_value() (in module spacr.cli) cohen_d_of() (in module spacr.qt.widgets.feature_rank) cohens_kappa() (in module spacr.agreement) col_label() (spacr.qt.widgets.pivot_spec.PivotResult method) collapse_section() (spacr.qt.widgets.console_panel.ConsolePanel method) CollapsibleSection (class in spacr.qt.widgets.collapsible_section) CollapsibleSplitter (class in spacr.qt.widgets.collapsible_splitter) collect() (in module spacr.crashreport) (in module spacr.workspace) (spacr.qt.screens.map_barcodes.CategoryFold method) (spacr.qt.screens.settings_model.SettingsWidgets method) collect_once() (in module spacr.qt.gc_policy) collect_report() (in module spacr.report) Collector (class in spacr.flowview.collector) collinear_guide_pairs() (in module spacr.regression_diagnostics) collision_note() (spacr.qt.screens.lineage.LineageScreen method) collision_summary() (in module spacr.sequencing_qc) color() (spacr.qt.widgets.dna_rain.DnaRainSettingsBar method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) color_blind_categorical_palette() (in module spacr.qt.preferences) color_blind_continuous_cmap() (in module spacr.qt.preferences) color_error() (in module spacr.qt.widgets.console_panel) color_output() (in module spacr.qt.widgets.console_panel) color_user() (in module spacr.qt.widgets.console_panel) color_warning() (in module spacr.qt.widgets.console_panel) Colormap (class in spacr.layers) colormap (spacr.layers.ImageLayer property) colormap() (in module spacr.layers) colormaps (spacr.layers.ImageLayer property) colors (spacr.layers.Colormap property) colors_for_labels() (in module spacr.qt.widgets.umap_search_viewer) colour (spacr.qt.widgets.trellis_spec.TrellisSpec property) colour_by_column() (spacr.qt.widgets.fast_plots.FastPlot method) colour_channels() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) colour_for() (in module spacr.qt.widgets.fast_plots) (spacr.qt.widgets.read_view.ReadView method) colour_limits() (in module spacr.plate_qc) colour_map_reason() (spacr.qt.widgets.fast_plots.FastPlot method) Column (class in spacr.qt.widgets.dna_rain) (class in spacr.qt.widgets.formula) column (spacr.qt.widgets.gate_spec.GateClause property) (spacr.qt.widgets.graph_builder.DropZone property) column_affinity() (in module spacr.qt.screens.db_browser) column_color() (spacr.qt.widgets.dna_rain.DnaRainWidget method) column_filter() (spacr.qt.screens.db_browser.PreviewModel method) column_for() (in module spacr.outlier_filter) (spacr.qt.widgets.graph_spec.GraphSpec method) column_id() (in module spacr.schema) column_index() (in module spacr.schema) column_info() (spacr.qt.widgets.column_picker.SchemaReader method) column_kinds() (in module spacr.multi_database) (in module spacr.qt.widgets.graph_spec) column_label() (in module spacr.object_settings_table) column_maps() (spacr.qt.screens.foreign.ForeignScreen method) column_name_at() (in module spacr.qt.widgets.feature_dictionary) column_name_for() (in module spacr.filters) column_names() (in module spacr.filters) (spacr.qt.widgets.column_picker.ColumnPickerDialog method) column_run_settings() (in module spacr.qt.widgets.measurement_scan_panel) column_text() (spacr.qt.widgets.dna_rain.DnaRainEngine method) column_types() (spacr.qt.screens.db_browser.ReadOnlyDb method) column_width() (spacr.qt.widgets.dock.Dock method) column_world() (spacr.layers.Canvas method) ColumnAlignedRow (class in spacr.qt.widgets.column_aligned_row) ColumnCollision (class in spacr.schema) ColumnConflict columnCount() (spacr.qt.screens.convert.PlanTableModel method) (spacr.qt.screens.db_browser.PreviewModel method) (spacr.qt.screens.foreign.ColumnMapModel method) (spacr.qt.screens.image_import.AnswerModel method) (spacr.qt.screens.image_import.ProposalModel method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsModel method) ColumnFit (class in spacr.qt.widgets.measurement_scan_panel) ColumnFormula (class in spacr.qt.widgets.formula) ColumnMap (class in spacr.foreign) ColumnMapModel (class in spacr.qt.screens.foreign) ColumnNotFound ColumnPickerButton (class in spacr.qt.widgets.column_picker) ColumnPickerDialog (class in spacr.qt.widgets.column_picker) ColumnRegressionPanel (class in spacr.qt.widgets.measurement_scan_panel) ColumnResult (class in spacr.qt.widgets.formula) columns (spacr.qt.widgets.gate_spec.BoxGate property) (spacr.qt.widgets.gate_spec.CompositeGate property) (spacr.qt.widgets.gate_spec.CylinderGate property) (spacr.qt.widgets.gate_spec.EllipseGate property) (spacr.qt.widgets.gate_spec.Gate property) (spacr.qt.widgets.gate_spec.PolygonGate property) (spacr.qt.widgets.gate_spec.PrismGate property) (spacr.qt.widgets.gate_spec.RectGate property) (spacr.qt.widgets.gate_spec.ThresholdGate property) (spacr.qt.widgets.gate_spec.ViewGate property) columns() (in module spacr.annotation) (spacr.hits.HitList method) (spacr.image_import.ImportPlan method) (spacr.layers.FieldKey class method) (spacr.qt.screens.db_browser.ReadOnlyDb method) (spacr.qt.widgets.figure_grid.SearchFigureGrid method) (spacr.qt.widgets.gate_canvas.AxisCutoffs method) (spacr.qt.widgets.graph_builder.ColumnWell method) (spacr.qt.widgets.measurement_scan_panel.ColumnRegressionPanel method) (spacr.qt.widgets.pivot_builder.DropWell method) columns_in() (in module spacr.column_groups) (in module spacr.qt.ask_for_the_path) ColumnTextScale (class in spacr.qt.live_zoom) ColumnWell (class in spacr.qt.widgets.graph_builder) combination_label() (in module spacr.filters) combine() (in module spacr.gene_measurement_compare) combine_masks() (in module spacr.qt.mask_engine) combine_results() (in module spacr.utils) CombinedDataset (class in spacr.io) CombineLoaders (class in spacr.io) Command (class in spacr.qt.command_palette) command (spacr.qt.ai.cli_install.InstallPlan property) (spacr.updater.InstallOffer property) command() (in module spacr.restart_state) CommandLineTool (class in spacr.qt.ai.providers) CommandPalette (class in spacr.qt.command_palette) CommandResult (class in spacr.remote_execution) comment_on_issue() (in module spacr.qt.ai.github_auth) commit() (spacr.qt.widgets.formula_editor.FormulaPanel method) common_prefix() (in module spacr.control_names) community_consented() (in module spacr.qt.widgets.model_share_dialog) community_guard() (in module spacr.qt.widgets.model_zoo_picker) community_layout() (in module spacr.qt.widgets.model_share) community_name() (in module spacr.qt.widgets.model_share) community_readme() (in module spacr.qt.widgets.model_share) community_repo() (in module spacr.qt.widgets.model_share) Comparability (class in spacr.run_compare) comparability() (in module spacr.run_compare) comparable (spacr.run_compare.RunComparison property) comparable_key_value() (in module spacr.schema) comparable_key_values() (in module spacr.schema) comparable_masks() (spacr.qt.widgets.live_preview.LivePreviewPanel method) compare() (in module spacr.bystanders) (in module spacr.figures.stats) (in module spacr.response_distribution) (spacr.qt.screens.model_compare.ModelCompareScreen method) (spacr.qt.screens.run_compare.RunCompareScreen method) compare_a_measurement() (spacr.qt.widgets.cell_montage_view.CellMontageView method) compare_against_baseline() (in module spacr.scorecard) compare_classifier_against_baseline() (in module spacr.scorecard) compare_configs() (in module spacr.model_compare) compare_entries() (in module spacr.model_zoo) compare_masks() (in module spacr.model_compare) compare_methods() (in module spacr.attribution) compare_models() (in module spacr.model_compare) compare_normalisations() (in module spacr.fraction_calibration) compare_reads_to_scores() (in module spacr.submodules) compare_runs() (in module spacr.run_compare) (in module spacr.train_compare) compare_selected() (spacr.qt.screens.model_zoo.ModelZooScreen method) compare_settings() (in module spacr.resume) Comparison (class in spacr.figures.stats) (class in spacr.gene_measurement_compare) (class in spacr.train_compare) comparison() (spacr.qt.screens.run_compare.RunCompareScreen method) (spacr.qt.screens.train_compare.TrainCompareScreen method) (spacr.qt.widgets.measurement_compare_dialog.MeasurementCompareDialog method) (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) comparison_groups() (spacr.qt.widgets.fast_plots.FastPlot method) (spacr.qt.widgets.grouped_plot.GroupedPlot method) comparison_layers() (spacr.qt.widgets.live_preview.LivePreviewPanel method) comparison_unit() (spacr.qt.widgets.fast_plots.FastPlot method) (spacr.qt.widgets.grouped_plot.GroupedPlot method) ComparisonGrid (class in spacr.qt.comparison_grid) ComparisonPanel (class in spacr.qt.comparison_grid) ComparisonReport (class in spacr.model_compare) ComparisonStyle (class in spacr.gene_measurement_compare) COMPARTMENT_SL (in module spacr.qt.widgets.organism_diagram) compartments() (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) compatibility_note() (in module spacr.qt.recipes) compensate_crosstalk() (in module spacr.ops_sbs) compiled() (spacr.regex_infer.Proposal method) complete (spacr.figures.scene.SceneReport property) completed (spacr.checkpoint.CheckpointStore property) completed_fields (spacr.illumination.SegmentationIlluminationSession property) completed_fields_in_db() (in module spacr.resume) completed_fields_in_merged() (in module spacr.resume) component_index() (in module spacr.qt.widgets.pca_model) component_name() (in module spacr.qt.widgets.pca_model) component_names (spacr.qt.widgets.pca_model.PCAResult property) compose_labels() (in module spacr.qt.screens.model_zoo) compose_prc() (in module spacr.schema) compose_prc_column() (in module spacr.schema) compose_prcf() (in module spacr.schema) compose_prcfo() (in module spacr.schema) compose_vector_figure() (in module spacr.regression_panels) compose_window() (in module spacr.ops_compose) ComposeError composite() (in module spacr.qt.theme) (in module spacr.qt.widgets.mask_comparison) CompositeGate (class in spacr.qt.widgets.gate_spec) compute() (in module spacr.qt.widgets.formula) (spacr.qt.screens.agreement.AgreementScreen method) compute_ap_over_iou_thresholds() (in module spacr.utils) compute_average_precision() (in module spacr.utils) compute_crops() (in module spacr.qt.widgets.measure_preview) compute_gradcam_and_predictions() (spacr.utils.GradCAMGenerator method) compute_gradcam_maps() (spacr.utils.GradCAMGenerator method) compute_irm_penalty() (in module spacr.utils) compute_maps_and_predictions() (spacr.attribution.AttributionMapGenerator method) compute_precision_recall() (in module spacr.sim) compute_roc_auc() (in module spacr.sim) compute_saliency_and_predictions() (spacr.utils.SaliencyMapGenerator method) compute_saliency_maps() (spacr.utils.SaliencyMapGenerator method) compute_segmentation_ap() (in module spacr.utils) compute_smooth_grad() (spacr.deep_spacr.SmoothGrad method) computed_frame() (spacr.qt.widgets.formula_editor.FormulaPanel method) concatenate_and_normalize() (in module spacr.io) Concept (class in spacr.feature_dict) concept_of() (in module spacr.feature_dict) concepts_for() (in module spacr.feature_dict) concordance_report() (in module spacr.guide_concordance) ConcurrencyProbeResult (class in spacr.database_concurrency) Condition (class in spacr.qt.widgets.plate_layout) condition_number() (in module spacr.regression_qc) condition_verdict() (in module spacr.regression_qc) conditional_text() (spacr.feature_dict.ConditionalUnit method) ConditionalUnit (class in spacr.feature_dict) conditions() (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) confidence_colour() (in module spacr.qt.screens.align) confidence_threshold() (in module spacr.confusion) ConfigurationError configure() (spacr.qt.screens.model_compare.ModelCompareScreen method) (spacr.qt.widgets.fast_plots.ResultsTable method) (spacr.qt.widgets.fractal_mandelbrot.SteeringCamera method) configure_hit() (spacr.qt.screens.model_explanation.InvestigateHitPanel method) (spacr.qt.screens.model_explanation.InvestigateHitScreen method) configure_logger() (in module spacr.logger) configure_max_sets_box() (in module spacr.qt.widgets.preview_controls) configure_submission() (spacr.qt.screens.distributed_jobs.DistributedJobsScreen method) configured_providers() (in module spacr.qt.ai.providers) confirm_and_archive() (spacr.qt.screens.data_manager.DataManagerScreen method) confirm_and_prune() (spacr.qt.screens.data_manager.DataManagerScreen method) confirm_backend_install() (in module spacr.qt.model_install) confirm_box() (spacr.qt.widgets.column_picker.ColumnPickerDialog method) confirm_community_uploads() (in module spacr.qt.widgets.model_zoo_picker) confirm_offered() (spacr.qt.widgets.column_picker.ColumnPickerDialog method) confirm_resource_action() (in module spacr.qt.preferences) confirmation_text() (in module spacr.qt.resource_cleanup) confirmation_title() (in module spacr.qt.resource_cleanup) ConfirmationRequired ConfirmDeleteDialog (class in spacr.qt.screens.data_manager) Conflict (class in spacr.foreign) conflict_lines() (spacr.qt.screens.foreign.ForeignScreen method) conform_crop() (in module spacr.crop_loader) Confusion (class in spacr.classifier_quality) (class in spacr.confusion) confusion() (in module spacr.classifier_quality) confusion_counts() (in module spacr.confusion) confusion_matrix() (in module spacr.agreement) confusion_rows() (spacr.qt.screens.agreement.AgreementScreen method) ConfusionCell (class in spacr.confusion) ConfusionError connect() (in module spacr.database_concurrency) (in module spacr.omero) (spacr.qt.screens.db_browser.ReadOnlyDb method) (spacr.qt.screens.db_browser.WritableDb method) connect_host() (in module spacr.qt.screens.map_barcodes) connect_investigation() (in module spacr.qt.screens.hit_list) connected_instances() (in module spacr.qt.mask_engine) connection_settings() (in module spacr.omero) connections() (in module spacr.qt.widgets.workflow_diagram) conscience_for() (in module spacr.qt.widgets.model_share) ConsentDialog (class in spacr.qt.widgets.model_share_dialog) console_can_encode() (in module spacr.utils) console_encoding() (in module spacr.utils) console_legend_prompt() (in module spacr.plaque_papers) console_levels() (in module spacr.qt.verbose_logger) console_review() (in module spacr.plaque_papers) console_safe() (in module spacr.utils) console_write() (in module spacr.qt.verbose_logger) console_write_in_progress() (in module spacr.qt.verbose_logger) ConsolePanel (class in spacr.qt.widgets.console_panel) constrain_to_fractions() (in module spacr.sudoku) consumers_of() (in module spacr.ports) ContainerListing (class in spacr.omero) contains() (spacr.cell_montage.ScoreWindow method) (spacr.plaque_papers.Region method) content() (spacr.qt.widgets.collapsible_section.CollapsibleSection method) content_bounds() (in module spacr.qt.widgets.animation_zoom) content_extent() (in module spacr.qt.widgets.animation_zoom) content_fingerprint() (in module spacr.artifacts) content_floor() (in module spacr.qt.dialogs) content_height() (spacr.qt.widgets.object_settings_grid.ObjectSettingsGrid method) content_mask() (in module spacr.qt.widgets.animation_zoom) Context (class in spacr.doctor) context_from_model() (in module spacr.regression_qc) contextMenuEvent() (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView method) contrast (spacr.qt.widgets.measurement_compare_dialog.MeasurementCompareDialog property) contrast_failures() (in module spacr.qt.theme) contrast_icon() (in module spacr.qt.iconset) contrast_limits() (spacr.layers.ImageLayer method) contrast_note() (in module spacr.gene_measurement_compare) contrast_ratio() (in module spacr.figure_style) (in module spacr.qt.theme) contrast_report() (in module spacr.qt.theme) contribute() (in module spacr.qt.widgets.model_share) contribute_images_and_masks() (spacr.qt.screens.make_masks.MakeMasksScreen method) contribute_masks_tooltip() (in module spacr.qt.widgets.model_share_dialog) contribute_training_data() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) contributed (spacr.cell_montage.WellSelection property) ContributeDialog (class in spacr.qt.widgets.plaque_preview) ContributeMasksDialog (class in spacr.qt.widgets.model_share_dialog) control_block_wells() (in module spacr.well_spec) control_chart() (in module spacr.qt.widgets.control_chart) control_filelist() (in module spacr.utils) control_fitted_embedding() (in module spacr.hit_investigation) control_recovery() (in module spacr.trial_metrics) control_separation() (in module spacr.figures.panels) control_wells() (in module spacr.gene_measurement_compare) ControlChartCanvas (class in spacr.qt.screens.control_chart) ControlChartError ControlChartResult (class in spacr.qt.widgets.control_chart) ControlChartScreen (class in spacr.qt.screens.control_chart) ControlChartSpec (class in spacr.qt.widgets.control_chart) ControlNotFound controls (spacr.qt.widgets.measurement_compare_dialog.MeasurementCompareDialog property) ControlSeparation (class in spacr.qt.widgets.fast_plots) ControlSpec (class in spacr.control_names) conv_layer_names() (in module spacr.attribution) ConversionPlan (class in spacr.convert) ConversionResult (class in spacr.convert) convert() (in module spacr.convert) convert_and_relabel_masks() (in module spacr.utils) convert_folder() (in module spacr.convert) convert_numpy_to_tiff() (in module spacr.io) convert_separate_files_to_yokogawa() (in module spacr.io) convert_settings_dict_for_gui() (in module spacr.settings_spec) convert_to_yokogawa() (in module spacr.io) ConvertDropHandler (class in spacr.qt.dnd_handlers) ConvertScreen (class in spacr.qt.screens.convert) cooks_distance() (in module spacr.regression_qc) coordinate_column() (in module spacr.stream_dataset) coordinates (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView property) coordinates() (spacr.qt.widgets.figure_grid.SearchFigureGrid method) copy() (spacr.batch.Job method) copy_all() (spacr.qt.widgets.console_panel.ConsolePanel method) copy_command() (spacr.qt.widgets.cli_setup_panel.CliSetupPanel method) copy_figure() (in module spacr.qt.widgets.save_figure_dialog) copy_images_to_consolidated() (in module spacr.utils) copy_limit_from_settings() (in module spacr.workspace) copy_to_clipboard() (spacr.qt.widgets.folding_summary.FoldingSummaryView method) copy_visible() (spacr.qt.widgets.fast_plots.ResultsTable method) corner() (spacr.qt.widgets.setup_card.SetupCard method) correct() (spacr.illumination.SegmentationIlluminationSession method) correct_batch_effects() (in module spacr.batch_correction) correct_from_metadata() (in module spacr.batch_correction) correct_mask() (in module spacr.napari_bridge) correct_masks() (in module spacr.utils) correct_metadata() (in module spacr.utils) correct_metadata_column_names() (in module spacr.utils) correct_paths() (in module spacr.utils) correct_to_library() (in module spacr.ops_sbs) correction() (spacr.qt.widgets.fast_plots.VolcanoPlot method) correction_kwargs() (in module spacr.batch_correction) CorrectionResult (class in spacr.napari_bridge) corridor() (spacr.qt.widgets.availability_panel.AvailabilityPanel method) CorruptMergedFile costs_a_reload() (spacr.qt.widgets.gate_settings.GateEditorSettings method) count (spacr.crop_loader.CropPlan property) count() (spacr.qt.screens.db_browser.ReadOnlyDb method) (spacr.qt.widgets.column_aligned_row.ColumnAlignedRow method) (spacr.qt.widgets.figure_grid.SearchFigureGrid method) (spacr.qt.widgets.figure_queue.FigureQueue method) (spacr.qt.widgets.flow.FlowLayout method) (spacr.qt.widgets.hint_bar.HintBar method) (spacr.qt.widgets.plaque_preview.ContributeDialog method) count_csvs() (spacr.qt.widgets.cell_montage_view.CellMontageView method) count_database() (in module spacr.run_compare) count_draft_objects() (in module spacr.curation_queue) count_non_null() (spacr.qt.widgets.column_picker.SchemaReader method) count_phenotypes() (in module spacr.submodules) count_ratio (spacr.model_compare.ComparisonReport property) count_reads_in_fastq() (in module spacr.utils) count_rows() (in module spacr.qt.annotate_engine) count_text() (spacr.qt.settings_search.SettingsSearchBar method) (spacr.qt.widgets.eliding.ProgressLine method) CountClass (class in spacr.counting) CountDiff (class in spacr.run_compare) counted_shape (spacr.anndata_export.ExportResult property) CountingPanel (class in spacr.qt.counting_tool) CountingSession (class in spacr.counting) CountingTool (class in spacr.qt.counting_tool) CountRow (class in spacr.run_compare) counts() (in module spacr.bystanders) (spacr.batch.Queue method) (spacr.counting.CountingSession method) (spacr.curation.CurationLog method) (spacr.gene_measurement_compare.Comparison method) (spacr.image_import.ImportPlan method) (spacr.lineage.LineageNode method) counts_and_areas() (in module spacr.scorecard) counts_at() (spacr.sequencing_qc.WellFractions method) cover_box() (in module spacr.qt.imagery) cover_rect() (in module spacr.qt.widgets.tile_chrome) Coverage (class in spacr.feature_dict) coverage (spacr.regex_infer.Proposal property) coverage() (in module spacr.feature_dict) covering() (spacr.layers.Canvas class method) (spacr.layers.OrthoViews class method) covers() (spacr.roi.RoiSet method) CpuParams (class in spacr.qt.cpu_modes) CrashReport (class in spacr.crashreport) create_circular_mask() (in module spacr.utils) create_consensus() (in module spacr.sequencing) create_database() (in module spacr.sim) create_fractal_widget() (in module spacr.qt.widgets.fractal_travel) create_grouped_plot() (in module spacr.plot) create_issue() (in module spacr.qt.ai.github_auth) create_plot() (spacr.plot.spacrGraph method) create_results_figure() (in module spacr.timelapse) create_venn_diagram() (in module spacr.plot) create_volcano_filename() (in module spacr.ml) createHandle() (spacr.qt.widgets.collapsible_splitter.CollapsibleSplitter method) criteria_disagree() (in module spacr.qt.screens.hyperparam) critical_p_value() (in module spacr.multiple_testing) crop() (spacr.qt.secondary_masks.PrimaryMaskSource method) crop_at() (in module spacr.crop_source) crop_count() (spacr.qt.widgets.cell_montage_view.CellMontageView method) crop_dtype (spacr.crops.MergedField property) crop_folder_format() (in module spacr.crops) crop_format_for_png() (in module spacr.crops) crop_message() (spacr.qt.screens.agreement.AgreementScreen method) crop_name() (in module spacr.stream_dataset) crop_name_metadata() (in module spacr.predictions) crop_object() (in module spacr.crop_source) crop_object_type() (in module spacr.io) crop_objects_from_array() (in module spacr.measure) crop_png_name() (in module spacr.io) crop_query() (spacr.qt.screens.embeddings.EmbeddingsScreen method) crop_record() (spacr.qt.screens.embeddings.EmbeddingsScreen method) crop_refs_for_rows() (in module spacr.io) crop_rows_from_object_table() (in module spacr.io) crop_rows_from_png_list() (in module spacr.png_list) crop_settings_from_db() (in module spacr.crops) crop_source() (spacr.qt.screens.embeddings.EmbeddingsScreen method) crop_spec_from_settings() (in module spacr.crops) crop_well() (in module spacr.plaque) CropError CropFormatConflict CropLoadError CropModeMismatch CropPlan (class in spacr.crop_loader) CropQuery (class in spacr.crop_loader) crops_for_object_keys() (in module spacr.active_learning) crops_from_merged() (in module spacr.crop_source) CropSettingsDialog (class in spacr.qt.widgets.measure_preview) CropSource (class in spacr.crops) CropSourceChoice (class in spacr.cell_montage) CropSourceError CropSpec (class in spacr.crops) CropThumbnails (class in spacr.qt.crop_thumbs) cross_calibrate_probabilities() (in module spacr.classifier_evaluation) crossfit_candidate_probabilities() (in module spacr.hit_attribution) csr_envelope() (in module spacr.point_patterns) css_color() (in module spacr.qt.theme) csv_row() (spacr.omero.PlanePlan method) cta_button (spacr.qt.widgets.empty_state.EmptyState property) ctc_pairs() (in module spacr.timeflows_model) ctc_pairs.indexed() (in module spacr.timeflows_model) cuda_available() (in module spacr.mixed_gpu) cuda_present_without_importing_torch() (in module spacr.regression_backends) cuda_reserved() (in module spacr.qt.resource_cleanup) cumulative_ratio (spacr.qt.widgets.pca_model.PCAResult property) curated (spacr.napari_bridge.MaskHandoff property) CurateScreen (class in spacr.qt.screens.curate) curation_csv_path() (in module spacr.qt.mask_engine) curation_folder() (in module spacr.qt.mask_engine) curation_verdict() (in module spacr.qt.mask_engine) CurationEdit (class in spacr.curation) CurationError CurationLog (class in spacr.curation) CurationQueue (class in spacr.curation_queue) CurationQueueError current() (in module spacr.qt.setup_screen) current_adaptive_space() (spacr.qt.screens.hyperparam.HyperparamPanel method) current_crop_path() (spacr.qt.screens.agreement.AgreementScreen method) current_doc() (spacr.qt.widgets.feature_dictionary.FeatureDictionaryPanel method) current_entry() (spacr.qt.widgets.availability_panel.AvailabilityPanel method) current_field (spacr.qt.widgets.qc_field_browser.QCFieldBrowser property) current_filter() (spacr.qt.widgets.data_filter_panel.DataFilterPanel method) current_filters() (spacr.qt.screens.hit_list.HitListScreen method) current_gate() (in module spacr.qt.bridge) current_language() (in module spacr.qt.i18n) current_log_file() (in module spacr.qt.verbose_logger) current_macro() (in module spacr.macro) current_method() (spacr.qt.screens.outliers.OutliersScreen method) current_offer() (spacr.qt.widgets.availability_panel.AvailabilityPanel method) current_params() (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) current_path() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) current_ring_color() (in module spacr.qt.screens.annotate) current_run() (in module spacr.run_journal) current_run_context() (in module spacr.runctx) current_run_id() (in module spacr.runctx) current_scale() (in module spacr.qt.gui_scale) current_settings() (spacr.qt.chaining.ChainingBar method) (spacr.qt.screens.map_barcodes.BarcodeSearchPanel method) (spacr.qt.screens.train_cellpose.CellposeWorkbenchScreen method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) current_slot (spacr.qt.screens.annotate.AnnotateScreen property) current_space() (spacr.qt.screens.hyperparam.HyperparamPanel method) current_spec() (spacr.qt.widgets.feature_explorer.FeatureExplorerPanel method) current_src() (in module spacr.qt.widgets.preview_refresh) current_table() (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.plate_view.PlateViewScreen method) current_target (spacr.qt.widgets.qc_field_browser.QCFieldBrowser property) current_text() (spacr.qt.widgets.column_picker.ColumnPickerButton method) current_token() (in module spacr.cancellation) current_value_column() (spacr.qt.screens.plate_view.PlateViewScreen method) current_version() (in module spacr.qt.setup_screen) Curve (class in spacr.attribution) (class in spacr.nonparametric_fits) curve() (spacr.qt.screens.profiler.CurveCanvas method) (spacr.qt.screens.profiler.ProfilerScreen method) (spacr.qt.widgets.dose_response.DoseResponseResult method) curve_frame() (spacr.qt.widgets.dose_response.DoseResponseResult method) (spacr.qt.widgets.fast_plots.FastPlot method) curve_points() (in module spacr.qt.screens.profiler) CurveCanvas (class in spacr.qt.screens.profiler) custom_forward() (spacr.utils.CustomCellClassifier method) (spacr.utils.MultiScaleBlockWithAttention method) custom_regex() (spacr.qt.screens.foreign.ForeignScreen method) custom_volcano_plot() (in module spacr.toxo) CustomCellClassifier (class in spacr.utils) CustomFeature (class in spacr.custom_features) cut() (in module spacr.stream_dataset) cut_recrop() (in module spacr.qt.mask_engine) cv2_to_rgb() (in module spacr.image_colors) cv_metric_keys() (in module spacr.deep_spacr) cv_search() (in module spacr.hyperparam) cx (spacr.plaque_papers.Word property) cy (spacr.plaque_papers.Word property) CylinderGate (class in spacr.qt.widgets.gate_spec)

D

dark_stack() (spacr.illumination.IlluminationField method) Dashboard (class in spacr.qt.widgets.qc_summary) dashboard() (spacr.qt.screens.qc_dashboard.QCDashboardScreen method) data (spacr.layers.ImageLayer property) (spacr.layers.LabelsLayer property) (spacr.layers.PointsLayer property) data() (spacr.qt.screens.convert.PlanTableModel method) (spacr.qt.screens.db_browser.PreviewModel method) (spacr.qt.screens.foreign.ColumnMapModel method) (spacr.qt.screens.image_import.AnswerModel method) (spacr.qt.screens.image_import.ProposalModel method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsModel method) data_colours() (in module spacr.plot) data_from_map() (spacr.layers.Spacing method) data_uri() (spacr.report.Figure method) database() (spacr.qt.screens.image_scatter.ImageScatterScreen method) database_file() (spacr.qt.dnd_handlers.MeasurementsDropHandler static method) database_for_source() (in module spacr.qt.widgets.database_set) database_labels() (spacr.qt.screens.gate_editor.GateEditorScreen method) database_path() (spacr.qt.screens.agreement.AgreementScreen method) (spacr.qt.screens.db_browser.DbBrowserScreen method) database_paths() (spacr.qt.widgets.database_set.DatabaseSetWidget method) database_schema_version() (in module spacr.database_schema) database_tables() (in module spacr.tabular) DatabaseBusy (class in spacr.database_concurrency) DatabaseConfigurationError DatabaseDropHandler (class in spacr.qt.dnd_handlers) DatabaseHealth (class in spacr.database_concurrency) DatabaseMergePanel (class in spacr.qt.widgets.measurement_scan_panel) DatabaseMigrationError databases (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel property) databases() (spacr.qt.widgets.cell_montage_view.CellMontageView method) databases_frame() (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) DatabaseSchemaTooNewError DatabaseSetWidget (class in spacr.qt.widgets.database_set) DataFilter (class in spacr.selection) DataFilterPanel (class in spacr.qt.widgets.data_filter_panel) DataIntegrityError DataManagerDropHandler (class in spacr.qt.dnd_handlers) DataManagerError DataManagerScreen (class in spacr.qt.screens.data_manager) dataset_class_balance() (in module spacr.deep_spacr) dataset_filenames() (in module spacr.io) dataset_labels() (in module spacr.io) dataset_names() (in module spacr.timeflows_qc) dataset_split_paths() (in module spacr.classifier_evaluation) dataset_statistics() (in module spacr.normalization) DatasetDescription (class in spacr.qt.multi_format) DatasetPicker (class in spacr.qt.make_masks_datasets) datasets_for() (in module spacr.qt.make_masks_datasets) db_candidates() (in module spacr.chaining) db_path() (spacr.qt.widgets.column_picker.ColumnPickerButton method) DbBrowserScreen (class in spacr.qt.screens.db_browser) debug() (in module spacr.utils) decision() (spacr.qt.widgets.metadata_mapper.MetadataColumnDialog method) decision_for() (in module spacr.multi_database) decision_log_path() (in module spacr.multi_database) decisive (spacr.guide_attribution.Assignment property) declared_app() (in module spacr.qt.app_catalog) declared_for() (in module spacr.qt.app_catalog) declared_inputs() (in module spacr.ports) declared_organelle_roles() (in module spacr.organelle_types) declared_outputs() (in module spacr.ports) DeclaredApp (class in spacr.qt.app_catalog) declares_conversion (spacr.foreign.ColumnMap property) decode_count() (in module spacr.qt.imagery) decode_input() (in module spacr.ops_sample) deconvolve() (in module spacr.classifier_quality) decorate_axes() (spacr.qt.widgets.gate_editor.GateCanvas method) (spacr.qt.widgets.graph_builder.GraphCanvas method) deep_spacr() (in module spacr.deep_spacr) deep_spacr_defaults() (in module spacr.settings) default_aggregated_columns() (in module spacr.plate_measurements) default_aggregation_columns (spacr.plate_measurements.PlateMerge property) default_aggregation_columns() (in module spacr.qt.widgets.measurement_scan_panel) DEFAULT_COLOURS (in module spacr.qt.widgets.segmentation_views) default_copy_limit_mb() (in module spacr.workspace) default_destination() (in module spacr.cli_download) default_for() (in module spacr.graph_types) default_kind() (spacr.qt.widgets.grouped_plot.PlotSpec method) default_label() (spacr.batch.Job method) default_local_roots() (in module spacr.model_zoo) default_mode() (in module spacr.workspace) default_out_path() (in module spacr.anndata_export) default_palette_for() (in module spacr.qt.widgets.ambient) default_plane_layout() (in module spacr.qt.widgets.motility_preview) default_profile_path() (in module spacr.install_profile) default_region_tour() (in module spacr.qt.widgets.fractal_travel) default_runner() (in module spacr.qt.plate_queue) default_settings() (in module spacr.align) (in module spacr.convert) (in module spacr.external_masks) (in module spacr.foreign) (in module spacr.host_pathogen) default_settings_analyze_percent_positive() (in module spacr.settings) default_source() (in module spacr._starplast) default_system_prompt() (in module spacr.qt.ai.prompts) defaults_for() (in module spacr.settings) defaults_label (spacr.cli.Module property) defined (spacr.agreement.AgreementReport property) (spacr.agreement.PairAgreement property) degrees (spacr.ops_phenotype.Alignment property) delay_ms() (spacr.qt.widgets.activity_spinner.ActivitySpinner method) delete() (in module spacr.gate_library) (spacr.curation.TrackCuration method) (spacr.remote_execution.ProfileStore method) delete_empty_subdirectories() (in module spacr.io) delete_folder() (in module spacr.utils) delete_intermedeate_files() (in module spacr.utils) delete_key() (in module spacr.qt.ai.keys) delete_object() (spacr.curation.MaskCuration method) delete_recipe() (in module spacr.qt.recipes) delete_runs() (in module spacr.run_journal) delete_runs_from_disk() (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) delete_selected() (spacr.qt.curation_tool.TrackCurationPanel method) deletion_curve() (in module spacr.attribution) deliver() (spacr.qt.dnd_handlers.CoefficientsDropHandler method) (spacr.qt.dnd_handlers.DataManagerDropHandler method) (spacr.qt.dnd_handlers.EvaluationBundleDropHandler method) (spacr.qt.dnd_handlers.LabelMaskDropHandler method) (spacr.qt.dnd_handlers.LayerStackDropHandler method) (spacr.qt.dnd_handlers.LayoutDropHandler method) (spacr.qt.dnd_handlers.LineageDropHandler method) (spacr.qt.dnd_handlers.ProjectFolderDropHandler method) (spacr.qt.dnd_handlers.ProjectRootsDropHandler method) (spacr.qt.dnd_handlers.ResultsFolderDropHandler method) (spacr.qt.dnd_handlers.ScatterTableDropHandler method) (spacr.qt.dnd_handlers.TableDropHandler method) deliverable_dpi() (in module spacr.plot) delta (spacr.run_compare.CountRow property) demo_settings() (in module spacr.qt.synthetic) DemoLayout (class in spacr.qt.synthetic) dense_mask_channel_positions() (in module spacr.utils) density() (spacr.qt.widgets.ambient.AmbientWidget method) dependency_versions() (in module spacr.torch_artifacts) depth() (spacr.qt.widgets.gate_spec.GateSet method) depth_after_restart() (in module spacr.qt.widgets.fractal_mandelbrot) depth_decades() (in module spacr.qt.widgets.fractal_mandelbrot) DepthPhase (class in spacr.qt.widgets.fractal_travel) derive_head_color() (in module spacr.qt.widgets.dna_rain) derive_threshold() (in module spacr.sequencing_qc) derived_settings() (spacr.qt.screens.measure_inputs.MeasureInputsScreen method) descendants() (spacr.lineage.LineageNode method) describe() (in module spacr.accelerator) (in module spacr.attribution_columns) (in module spacr.columns) (in module spacr.dependent_join) (in module spacr.fraction_calibration) (in module spacr.frame_handoff) (in module spacr.gate_library) (in module spacr.gpu_reduce) (in module spacr.group_lasso) (in module spacr.nonparametric_fits) (in module spacr.outlier_filter) (in module spacr.qt.detect_chain) (in module spacr.qt.laptop_mode) (in module spacr.resource_log) (in module spacr.response_distribution) (in module spacr.rra) (in module spacr.thresholds) (in module spacr.well_scope) (spacr.anndata_export.ExportResult method) (spacr.cell_montage.Coefficient method) (spacr.cell_montage.CropSourceChoice method) (spacr.cell_montage.RouteRequirements method) (spacr.cell_montage.ScoreWindow method) (spacr.cell_montage.WellSelection method) (spacr.chaining.ChainedInput method) (spacr.chaining.DropTarget method) (spacr.chaining.HeldPin method) (spacr.confusion.Confusion method) (spacr.confusion.ConfusionCell method) (spacr.counting.CountingSession method) (spacr.crop_loader.CropPlan method) (spacr.crop_loader.CropQuery method) (spacr.crops.CropSource method) (spacr.crops.MigrationResult method) (spacr.curation.CurationEdit method) (spacr.curation.CurationLog method) (spacr.curation.TrackCuration method) (spacr.curation_queue.CurationQueue method) (spacr.curation_queue.QueueSummary method) (spacr.gene_measurement_sweep.SweepResult method) (spacr.hyperparam.SearchSpace method) (spacr.illumination.IlluminationField method) (spacr.illumination.IlluminationModel method) (spacr.image_stitch.Mosaic method) (spacr.layers.CanvasLink method) (spacr.layers.Layer method) (spacr.layers.LayerStack method) (spacr.layers.OrthoViews method) (spacr.layers.Spacing method) (spacr.lineage.LineageNode method) (spacr.measurement_scan.ScanResult method) (spacr.model_zoo.ModelEntry method) (spacr.multi_database.MergePlan method) (spacr.napari_bridge.CorrectionResult method) (spacr.napari_bridge.MaskHandoff method) (spacr.ome_zarr.Axis method) (spacr.ome_zarr.Level method) (spacr.ome_zarr.OmeZarrImage method) (spacr.omero.ContainerListing method) (spacr.omero.ExportResult method) (spacr.omero.ImportResult method) (spacr.omero.OmeroConnection method) (spacr.omero.OmeroRef method) (spacr.omero.PixelSize method) (spacr.plate_measurements.PlateMerge method) (spacr.portable_paths.RerootReport method) (spacr.ports.ShapeContract method) (spacr.projects.ModuleState method) (spacr.projects.ProjectSummary method) (spacr.projects.StaleArtifact method) (spacr.qt.crop_thumbs.CropThumbnails method) (spacr.qt.screens.data_manager.ConfirmDeleteDialog method) (spacr.qt.screens.pipeline_graph.PipelineGraphScreen method) (spacr.qt.screens.power.PowerCurveView method) (spacr.qt.widgets.control_chart.ControlChartSpec method) (spacr.qt.widgets.control_chart.Violation method) (spacr.qt.widgets.dose_response.DoseResponseSpec method) (spacr.qt.widgets.dose_response.HormesisCheck method) (spacr.qt.widgets.dose_response.MonotonicityCheck method) (spacr.qt.widgets.feature_rank.ClassSummary method) (spacr.qt.widgets.feature_rank.ExplorerSpec method) (spacr.qt.widgets.feature_rank.FeatureScore method) (spacr.qt.widgets.formula.ColumnFormula method) (spacr.qt.widgets.formula.FormulaSet method) (spacr.qt.widgets.gate_canvas.AxisCutoff method) (spacr.qt.widgets.gate_spec.BoxGate method) (spacr.qt.widgets.gate_spec.CompositeGate method) (spacr.qt.widgets.gate_spec.CylinderGate method) (spacr.qt.widgets.gate_spec.EllipseGate method) (spacr.qt.widgets.gate_spec.Gate method) (spacr.qt.widgets.gate_spec.GateClause method) (spacr.qt.widgets.gate_spec.GateSet method) (spacr.qt.widgets.gate_spec.GateStats method) (spacr.qt.widgets.gate_spec.PolygonGate method) (spacr.qt.widgets.gate_spec.PrismGate method) (spacr.qt.widgets.gate_spec.RectGate method) (spacr.qt.widgets.gate_spec.ThresholdGate method) (spacr.qt.widgets.gate_spec.ViewGate method) (spacr.qt.widgets.graph_spec.GraphSpec method) (spacr.qt.widgets.measurement_scan_panel.ColumnFit method) (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) (spacr.qt.widgets.outlier_model.OutlierSpec method) (spacr.qt.widgets.pca_model.PCASpec method) (spacr.qt.widgets.pivot_spec.PivotSpec method) (spacr.qt.widgets.preview_controls.ImageSetSampler method) (spacr.qt.widgets.timelapse_preview.FrameSequence method) (spacr.qt.widgets.trellis_spec.TrellisSpec method) (spacr.regression_annotation.Strategy method) (spacr.resource_log.ResourceSampler method) (spacr.resume.SettingsComparison method) (spacr.roi.RoiSet method) (spacr.selection.CategoryFilter method) (spacr.selection.DataFilter method) (spacr.selection.ObjectRequest method) (spacr.selection.RangeFilter method) (spacr.updater.PackageChange method) describe_3d_measurement() (in module spacr.zstack) describe_active() (in module spacr.qt.shutdown) describe_backends() (in module spacr.regression_backends) describe_basis() (in module spacr.training_basis) describe_breakdown() (in module spacr.confusion) describe_columns() (in module spacr.feature_dict) describe_confusions() (in module spacr.confusion) describe_database() (in module spacr.feature_dict) describe_device() (in module spacr.mixed_gpu) describe_edge() (spacr.qt.widgets.workflow_diagram.WorkflowView method) describe_failure() (in module spacr.regression_failure) describe_file() (in module spacr.qt.multi_format) describe_folder() (spacr.qt.widgets.sweep_runs.SweepRunsPanel static method) describe_forest() (in module spacr.lineage) describe_hooks() (in module spacr.measure_hooks) describe_identifier_refusal() (in module spacr.plate_measurements) describe_install_recipes() (in module spacr.regression_backends) describe_intercept() (in module spacr.baseline) describe_key_overlap() (in module spacr.qt.widgets.measurement_scan_panel) describe_mask() (spacr.qt.screens.make_masks.NapariBridgeScreen method) describe_merge() (in module spacr.multi_database) describe_node() (spacr.qt.widgets.workflow_diagram.WorkflowView method) describe_normalization() (in module spacr.normalization) describe_objects() (in module spacr.object_classifier) describe_optics() (in module spacr.point_spread) describe_plan() (in module spacr.validate)

describe_ports() (in module spacr.ports) describe_proposed_changes() (in module spacr.qt.screens.map_barcodes) describe_resources() (in module spacr.fit_resources) describe_running() (in module spacr.restart_state) describe_saved_states() (in module spacr.qt.widgets.sweep_runs) description (spacr.import_examples.ImportVariant property) description_text() (spacr.qt.widgets.test_data_chooser.TestDataChooser method) descriptor() (in module spacr.figures.style) design() (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) (spacr.qt.screens.profiler.ProfilerScreen method) design_bytes() (in module spacr.mixed_gpu) design_diagnostics() (in module spacr.trial_metrics) design_from_record() (in module spacr.qt.widgets.plate_layout) design_report() (in module spacr.regression_diagnostics) design_summary() (in module spacr.trial_metrics) DesignFinding (class in spacr.qt.widgets.plate_layout) DesignSpec (class in spacr.qt.widgets.power_design) destination() (in module spacr.refit) (spacr.qt.screens.measure_inputs.MeasureInputsScreen method) destination_path() (spacr.qt.screens.convert.ConvertScreen method) (spacr.qt.screens.foreign.ForeignScreen method) (spacr.qt.screens.image_import.ImageImportScreen method) det_score() (in module spacr.timeflows_baseline) detach() (spacr.counting.CountingSession method) (spacr.qt.comparison_grid.ComparisonPanel method) (spacr.qt.curation_tool.BrushTool method) (spacr.qt.layer_viewer.CanvasTool method) (spacr.qt.layer_viewer.LayerCanvas method) (spacr.qt.layer_viewer.LayerListWidget method) (spacr.qt.roi_tool.RoiPen method) detach_all_dialogs() (in module spacr.qt.dialogs) detach_from_window_manager() (in module spacr.qt.dialogs) detail (spacr.chaining.StaleNote property) detail_text() (spacr.qt.recipes.RecipeDialog method) (spacr.qt.screens.model_zoo.ModelZooScreen method) (spacr.qt.widgets.eliding.ProgressLine method) (spacr.qt.widgets.feature_dictionary.FeatureDictionaryPanel method) details_box() (in module spacr.qt.widgets.workflow_diagram) detect() (spacr.qt.widgets.fractal_travel.HardwareProfile static method) detect_axes() (in module spacr.zstack) detect_edge_effect() (in module spacr.plate_qc) detect_figure() (in module spacr.qt.widgets.plaque_preview) detect_folder_metadata() (in module spacr.qt.folder_metadata) detect_inputs() (in module spacr.external_masks) detect_layout() (in module spacr.curation_queue) detect_outliers() (in module spacr.qt.widgets.outlier_model) detect_wells() (in module spacr.plaque) detect_z_axis() (in module spacr.zstack) detector_choices() (in module spacr.qt.widgets.plaque_preview) device_ratio() (in module spacr.qt.hidpi) device_string() (in module spacr.accelerator) df_resid (spacr.mixed_gpu.TorchMixedResults property) dffits() (in module spacr.regression_qc) diagnose() (in module spacr.seg_qc) diagnose_p_value_histogram() (in module spacr.regression_qc) diagnostic_plots() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) diagnostics() (in module spacr.plugins) DiagnosticsOpener (class in spacr.qt.screens.regression) diagram_splitter() (in module spacr.qt.widgets.workflow_diagram) DiagramDialog (class in spacr.qt.widgets.workflow_diagram) diameter_dialog() (in module spacr.qt.prerun) diameter_px (spacr.plaque.Well property) diameter_screen_of() (in module spacr.qt.prerun) DiameterDialog (class in spacr.qt.prerun) DiameterEstimate (class in spacr.diameter) DiameterPanel (class in spacr.qt.prerun) dice() (in module spacr.scorecard) dice_coefficient() (in module spacr.utils) diff_counts() (in module spacr.run_compare) diff_headers() (spacr.qt.screens.train_compare.TrainCompareScreen method) diff_hits() (in module spacr.run_compare) diff_rows() (spacr.qt.screens.train_compare.TrainCompareScreen method) diff_runs() (in module spacr.run_journal) diff_settings() (in module spacr.qt.settings_diff) (in module spacr.train_compare) diff_settings_grouped() (in module spacr.qt.settings_diff) differs (spacr.chaining.HeldPin property) DiffRow (class in spacr.qt.settings_diff) digest (spacr.qt.prerun.SegQCBanner property) digest() (spacr.qt.screens.methods_export.MethodsExportScreen method) digest_numbers() (in module spacr.methods_export) digest_strings() (in module spacr.methods_export) dilate_objects() (in module spacr.qt.mask_engine) dim() (in module spacr.qt.imagery) dimension_is_on() (spacr.qt.screens.app_screen.AppScreen method) dimension_settings() (in module spacr.qt.screens.app_screen) dimension_switch() (spacr.qt.screens.app_screen.AppScreen method) dimensions (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView property) direction (spacr.gene_tile.GuideRow property) direction() (spacr.qt.widgets.ambient.AmbientWidget method) directory (spacr.qt.widgets.preview_controls.ImageSetSampler property) disable() (in module spacr.flowview.trace) (spacr.qt.roi_tool.RoiPanel method) disable_combo_row() (in module spacr.qt.widgets.availability_panel) disable_debug() (in module spacr.logging_util) disable_edit_mode() (spacr.qt.screens.db_browser.DbBrowserScreen method) disable_function_trace() (in module spacr.logging_util) disable_illumination_correction() (in module spacr.illumination) disable_roi_filter() (in module spacr.roi) disable_spaceout() (in module spacr.qt.theme) disable_timing() (in module spacr.logging_util) disagreement() (in module spacr.active_learning) disagreement_paths() (spacr.qt.screens.agreement.AgreementScreen method) disagreement_rows() (spacr.qt.screens.agreement.AgreementScreen method) disagreements() (in module spacr.agreement) disarm() (spacr.qt.widgets.drawer.EdgeDrawer method) discard() (in module spacr.restart_state) (spacr.flowview.thumbs.ThumbnailCache method) disclosure_for() (in module spacr.qt.settings_search) discover() (in module spacr.projects) (in module spacr.qt.shortcuts) (spacr.pipeline_v2.FilenameMapper class method) discover_columns() (in module spacr.qt.widgets.row_exclusion) discover_features() (in module spacr.custom_features) discover_field_tables() (in module spacr.resume) discover_items() (in module spacr.curation_queue) discover_local() (in module spacr.model_zoo) discover_plugins() (in module spacr.plugins) discover_test_splits() (in module spacr.classifier_quality) disk_report() (in module spacr.qt.resource_cleanup) disk_used() (spacr.qt.widgets.home.SystemPanel static method) DiskEntry (class in spacr.qt.resource_cleanup) DiskReport (class in spacr.qt.resource_cleanup) dismiss() (spacr.qt.shortcuts.ShortcutOverlay method) (spacr.qt.widgets.availability_panel.AvailabilityPanel method) displacement_table() (in module spacr.timeflows_qc) display() (in module spacr.core) (in module spacr.io) (in module spacr.ml) (in module spacr.object) (in module spacr.sequencing) (in module spacr.spacr_cellpose) (in module spacr.submodules) (in module spacr.utils) display_channel() (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) display_name (spacr.qt.i18n.Language property) display_primaries() (spacr.qt.widgets.preview_contract.LivePreviewContract method) display_primaries_note() (spacr.qt.widgets.preview_contract.LivePreviewContract method) display_settings() (spacr.qt.widgets.umap_explorer.ImageUmapExplorer method) display_verdict (spacr.qt.widgets.qc_summary.QCCard property) displayed_plates() (in module spacr.qt.widgets.measurement_scan_panel) displayed_text() (spacr.qt.widgets.ai_toggle_label.AiToggleLabel method) (spacr.qt.widgets.eliding.ProgressLine method) dist_gen() (in module spacr.sim) distance_to_infected() (in module spacr.bystanders) distinct (spacr.regex_infer.FieldEvidence property) distinct_values() (in module spacr.qt.widgets.row_exclusion) DistributedJobsScreen (class in spacr.qt.screens.distributed_jobs) distributions() (in module spacr.qt.widgets.feature_rank) divide_object() (in module spacr.qt.mask_engine) Divider (class in spacr.qt.widgets.divider) division_events() (in module spacr.timeflows_qc) DnaRainEngine (class in spacr.qt.widgets.dna_rain) DnaRainSettingsBar (class in spacr.qt.widgets.dna_rain) DnaRainSettingsPopover (class in spacr.qt.widgets.dna_rain_settings) DnaRainWidget (class in spacr.qt.widgets.dna_rain) DnaSettingsButton (class in spacr.qt.widgets.dna_rain_settings) doc_for() (in module spacr.feature_dict) Dock (class in spacr.qt.widgets.dock) dock_colour() (in module spacr.qt.theme) dock_mode() (spacr.qt.app.MainWindow method) dock_rows() (in module spacr.qt.app) DockEdge (class in spacr.qt.widgets.dock) DockRow (class in spacr.qt.widgets.dock) docs_anchor (spacr.setting_animations.SettingAnimation property) docs_reach() (in module spacr.qt.help_search) docs_url (spacr.setting_animations.SettingAnimation property) dominant() (spacr.qt.widgets.pca_model.PCAResult method) done() (spacr.qt.ai.pty_sign_in.SignInDialog method) (spacr.qt.screens.data_manager.ConfirmDeleteDialog method) (spacr.qt.screens.measure_inputs.MeasureInputsScreen method) (spacr.qt.widgets.cli_setup_panel.CliSetupPanel method) (spacr.qt.widgets.column_picker.ColumnPickerDialog method) (spacr.qt.widgets.import_workbench.ImportWorkbenchDialog method) (spacr.qt.widgets.model_zoo_picker.ModelZooPicker method) DoseResponseError DoseResponseResult (class in spacr.qt.widgets.dose_response) DoseResponseScreen (class in spacr.qt.screens.dose_response) DoseResponseSet (class in spacr.qt.widgets.dose_response) DoseResponseSpec (class in spacr.qt.widgets.dose_response) DotLink (class in spacr.qt.widgets.dot_link) double_click() (spacr.qt.layer_viewer.CanvasTool method) (spacr.qt.roi_tool.RoiPen method) double_transform_warning() (in module spacr.ml) download_annotate_example() (in module spacr.qt.hf_download) download_archive() (in module spacr.example_archives) download_assay_example() (in module spacr.qt.assay_examples) download_bundled_models() (in module spacr.model_zoo) download_chosen_screen_data() (in module spacr.qt.hf_download) download_import_example() (in module spacr.qt.import_demo) download_make_masks_example() (in module spacr.qt.make_masks_demo) download_measure_example() (in module spacr.qt.hf_download) download_models() (in module spacr) (in module spacr.utils) download_nasa_background() (in module spacr.qt.space) download_progress() (spacr.qt.screens.model_zoo.ModelZooScreen method) download_selected() (spacr.qt.screens.model_zoo.ModelZooScreen method) download_toxo_mito_demo() (in module spacr.qt.hf_download) download_zoo_model() (spacr.qt.screens.make_masks.MakeMasksScreen method) DownloadCancelled downloaded_background() (in module spacr.qt.space) downloaded_zoo_models() (in module spacr.settings) DownloadResult (class in spacr.qt.hf_download) downstream() (spacr.pipeline_graph.PipelineGraph method) downstream_of() (in module spacr.artifacts) (spacr.artifacts.Registry method) draft (spacr.curation_queue.QueueItem property) draft() (spacr.qt.screens.methods_export.MethodsExportScreen method) draft_stats() (in module spacr.curation_queue) drag() (spacr.qt.widgets.fractal_mandelbrot.SteeringCamera method) drag_mode() (spacr.qt.widgets.gate_editor.GateCanvas method) (spacr.qt.widgets.gate_editor.GateEditorPanel method) drag_to() (spacr.qt.widgets.plate_map_picker.PlateMapPicker method) drag_wells_to() (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) dragEnterEvent() (spacr.qt.widgets.file_list.FilePathListWidget method) (spacr.qt.widgets.file_list.PairedFileTableWidget method) (spacr.qt.widgets.graph_builder.DropZone method) (spacr.qt.widgets.import_workbench.ImportWorkbench method) (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.measure_input_table.MeasureInputTable method) (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) dragLeaveEvent() (spacr.qt.widgets.graph_builder.DropZone method) dragMoveEvent() (spacr.qt.widgets.file_list.FilePathListWidget method) (spacr.qt.widgets.file_list.PairedFileTableWidget method) (spacr.qt.widgets.graph_builder.DropZone method) (spacr.qt.widgets.import_workbench.ImportWorkbench method) (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.measure_input_table.MeasureInputTable method) (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) drain() (spacr.flowview.collector.Collector method) drain_thread() (in module spacr.qt.bridge) draw_crop() (in module spacr.picture_settings) draw_panel() (in module spacr.regression_qc) draw_plate() (in module spacr.figures.plates) draw_verdict() (in module spacr.regression_qc) dressed() (in module spacr.qt.widgets.ambient) drift (spacr.align.PairResult property) drift_direction_label() (in module spacr.qt.widgets.ambient) drift_direction_note() (in module spacr.qt.widgets.ambient) drifted (spacr.data_manager.KindUsage property) drop (spacr.attribution.Curve property) drop_cache_budget_entry() (in module spacr.qt.annotate_engine) (spacr.qt.crop_thumbs.CropThumbnails method) (spacr.qt.widgets.figure_queue.FigureQueue method) drop_guides() (in module spacr.read_background) drop_low_cell_wells() (in module spacr.power_simulate) drop_retired() (in module spacr.picture_settings) drop_specks() (in module spacr.qt.widgets.animation_zoom) drop_the_explicit_floor() (in module spacr.qt.dialogs) DropChoice (class in spacr.chaining) dropEvent() (spacr.qt.widgets.file_list.FilePathListWidget method) (spacr.qt.widgets.file_list.PairedFileTableWidget method) (spacr.qt.widgets.graph_builder.DropZone method) (spacr.qt.widgets.import_workbench.ImportWorkbench method) (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.measure_input_table.MeasureInputTable method) (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) DropHandler (class in spacr.qt.dnd) dropped (spacr.crop_loader.CropPlan property) dropped_columns (spacr.multi_database.MergePlan property) (spacr.plate_measurements.PlateMerge property) DropResolution (class in spacr.chaining) DropTarget (class in spacr.chaining) DropWell (class in spacr.qt.widgets.pivot_builder) DropZone (class in spacr.qt.widgets.graph_builder) dry_run_command() (in module spacr.updater) dry_run_install() (in module spacr.updater) DryRun (class in spacr.updater) dtype (spacr.crops.MergedField property) (spacr.ome_zarr.OmeZarrImage property) duplicate_selected() (spacr.qt.screens.batch.BatchScreen method) DuplicateObjectKeys duration_s (spacr.batch.Job property) (spacr.batch.QueueResult property) dynamic_figures_enabled() (spacr.qt.widgets.figure_queue.FigureQueue method)

E

EarlyFusion (class in spacr.utils) ease() (spacr.qt.widgets.setup_card.SetupCard method) eased() (in module spacr.qt.widgets.fractal_mandelbrot) ec50_fold_uncertainty (spacr.qt.widgets.dose_response.DoseResponseResult property) Edge (class in spacr.flowview.model) (class in spacr.pipeline_graph) edge_description() (in module spacr.qt.widgets.workflow_diagram) EdgeAdded (class in spacr.flowview.events) EdgeDrawer (class in spacr.qt.widgets.drawer) EdgeEffectReport (class in spacr.plate_qc) edit_cell() (spacr.qt.screens.db_browser.DbBrowserScreen method) edit_mode_enabled() (spacr.qt.screens.db_browser.DbBrowserScreen method) edit_picture_settings() (spacr.qt.widgets.cell_montage_view.CellMontageView method) editable_install_location() (in module spacr.updater) editing_allowed_by_preference() (spacr.qt.screens.db_browser.DbBrowserScreen method) editor() (spacr.qt.widgets.plaque_preview.ContributeDialog method) EditRefused edits (spacr.curation.CurationLog property) effect_agreement() (in module spacr.annotation_umap_qc) effect_column() (in module spacr.figures.panels) effect_distribution() (in module spacr.figures.panels) effect_rank() (in module spacr.figures.panels) EffectDistribution (class in spacr.qt.widgets.fast_plots) effective_number_of_tests() (in module spacr.measurement_scan) effective_pane_alpha() (in module spacr.qt.preferences) effective_surface() (in module spacr.qt.theme) EffectRankPlot (class in spacr.qt.widgets.fast_plots) effects_grid_from_results() (in module spacr.cell_montage) elapsed() (in module spacr.qt.timing) (spacr.qt.bridge.RunHandle method) elapsed_s (spacr.batch.Job property) (spacr.qt.plate_queue.QueueItem property) ElidingLabel (class in spacr.qt.widgets.eliding) ElidingPushButton (class in spacr.qt.widgets.eliding) EllipseGate (class in spacr.qt.widgets.gate_spec) embed() (spacr.qt.screens.embeddings.EmbeddingsScreen method) embed_array() (in module spacr.embeddings) embedded (spacr.report.Figure property) embedding_column_names() (in module spacr.embeddings) embedding_stability() (in module spacr.hyperparam) EmbeddingError EmbeddingResult (class in spacr.embeddings) EmbeddingSpec (class in spacr.embeddings) EmbeddingsScreen (class in spacr.qt.screens.embeddings) emit() (spacr.flowview.collector.Collector method) (spacr.qt.logging_util.QtLogHandler method) emit_safely() (in module spacr.qt.bridge) empty_cache() (in module spacr.accelerator) empty_object_filters() (in module spacr.qt.annotate_engine) EmptyState (class in spacr.qt.widgets.empty_state) enable() (in module spacr.flowview.trace) (spacr.qt.roi_tool.RoiPanel method) enable_debug() (in module spacr.logging_util) enable_edit_mode() (spacr.qt.screens.db_browser.DbBrowserScreen method) enable_function_trace() (in module spacr.logging_util) enable_illumination_correction() (in module spacr.illumination) enable_roi_filter() (in module spacr.roi) enable_safe_mode() (in module spacr.qt.preferences) enable_spaceout() (in module spacr.qt.theme) enable_timing() (in module spacr.logging_util) enable_wal_where_safe() (in module spacr.database_concurrency) enabled() (spacr.qt.widgets.model_zoo_picker.SourceStrip method) enabled_gates (spacr.qt.widgets.gate_editor.GateCanvas property) enabled_organelle_roles() (in module spacr.object_roles) encoder_entry() (in module spacr.embeddings) encoder_key() (in module spacr.embeddings) end_stroke() (spacr.curation.MaskCuration method) end_view() (spacr.qt.widgets.collapsible_splitter.FocusCollapse method) engine (spacr.qt.widgets.ambient.AmbientWidget property) (spacr.qt.widgets.dna_rain.DnaRainWidget property) engine_algorithm() (in module spacr.qt.cpu_modes) ensure_analysis() (in module spacr.qt.resonance) ensure_annotation_column() (in module spacr.qt.annotate_engine) ensure_community_repo() (in module spacr.qt.widgets.model_share) ensure_database_schema() (in module spacr.database_schema) ensure_field_fade_qss() (in module spacr.qt.widgets.field_fade) ensure_filters_table() (in module spacr.filters) ensure_no_retained_measurements() (in module spacr.image_quality) ensure_relationships_table() (in module spacr.filters) ensure_rendered() (in module spacr.qt.sound_synth) ensure_round_tables() (in module spacr.active_learning) ensure_verdict_column() (in module spacr.suggest) ensure_widget_qss_applied() (in module spacr.qt.theme) enterEvent() (spacr.qt.widgets.availability_panel.AvailabilityPanel method) (spacr.qt.widgets.dock.DockEdge method) (spacr.qt.widgets.dock.DockRow method) (spacr.qt.widgets.drawer.EdgeDrawer method) (spacr.qt.widgets.height_grip.HeightGrip method) (spacr.qt.widgets.hover_tooltip.HoverTooltip method) entries() (spacr.qt.screens.model_zoo.ModelZooScreen method) (spacr.qt.widgets.availability_panel.AvailabilityPanel method) entries_from_sources() (in module spacr.model_zoo) entries_of_kind() (in module spacr.example_data) entropy() (in module spacr.active_learning) entry (spacr.macro.MacroStep property) entry_for() (in module spacr.macro) entry_from_file() (in module spacr.model_zoo) enumerate() (spacr.qt.widgets.preview_controls.ImageSetSampler method) enumerate_image_sets() (in module spacr.qt.widgets.preview_controls) enumerate_paths() (spacr.qt.widgets.preview_controls.ImageSetSampler method) epoch_range() (spacr.train_compare.Series method) epoch_ranges() (spacr.train_compare.Comparison method) epochs (spacr.train_compare.Series property) erase() (spacr.curation.MaskCuration method) erase_object_at() (in module spacr.qt.mask_engine) erase_object_in_place() (in module spacr.qt.mask_engine) error (spacr.convert.SourceImage property) error_explainer_prompt() (in module spacr.qt.ai.prompts) error_message() (spacr.qt.dnd.DropHandler method) (spacr.qt.dnd_handlers.AlignDropHandler method) (spacr.qt.dnd_handlers.AnnotateDropHandler method) (spacr.qt.dnd_handlers.BatchDropHandler method) (spacr.qt.dnd_handlers.CellposeFolderDropHandler method) (spacr.qt.dnd_handlers.ClassifyDropHandler method) (spacr.qt.dnd_handlers.ConvertDropHandler method) (spacr.qt.dnd_handlers.DatabaseDropHandler method) (spacr.qt.dnd_handlers.ExplainCvInputsDropHandler method) (spacr.qt.dnd_handlers.ExternalMasksDropHandler method) (spacr.qt.dnd_handlers.ForeignProjectDropHandler method) (spacr.qt.dnd_handlers.ImageFieldsDropHandler method) (spacr.qt.dnd_handlers.ImageImportDropHandler method) (spacr.qt.dnd_handlers.InvestigateHitInputsDropHandler method) (spacr.qt.dnd_handlers.LayoutDropHandler method) (spacr.qt.dnd_handlers.MakeMasksDropHandler method) (spacr.qt.dnd_handlers.MapBarcodesDropHandler method) (spacr.qt.dnd_handlers.MaskDropHandler method) (spacr.qt.dnd_handlers.MeasureDropHandler method) (spacr.qt.dnd_handlers.MeasurementsDropHandler method) (spacr.qt.dnd_handlers.ModelZooDropHandler method) (spacr.qt.dnd_handlers.PlaqueDropHandler method) (spacr.qt.dnd_handlers.PlateQueueDropHandler method) (spacr.qt.dnd_handlers.RegressionDropHandler method) (spacr.qt.dnd_handlers.ReportDropHandler method) (spacr.qt.dnd_handlers.SourceDropHandler method) (spacr.qt.dnd_handlers.SubmissionSettingsDropHandler method) (spacr.qt.dnd_handlers.SweepInputsDropHandler method) (spacr.qt.dnd_handlers.TrainingRunsDropHandler method) ErrorPolicy (class in spacr.runctx) errors (spacr.ports.Readiness property) escape_key_component() (in module spacr.selection) essential_keys() (in module spacr.qt.screens.settings_model) (spacr.qt.screens.settings_model.SettingsWidgets method) estimate_class_counts() (in module spacr.utils) estimate_count() (spacr.qt.screens.db_browser.ReadOnlyDb method) estimate_diameters() (in module spacr.diameter) estimate_illumination() (in module spacr.illumination) estimate_offsets() (in module spacr.align) estimate_page() (in module spacr.plaque_growth) estimate_peak_bytes() (in module spacr.zstack) estimate_peak_bytes_4d() (in module spacr.zstack) estimate_pi0() (in module spacr.multiple_testing) estimate_read_locations() (in module spacr.ops_sbs) estimate_rows() (spacr.qt.widgets.column_picker.SchemaReader method) estimate_runtime_s() (in module spacr.qt.widgets.power_design) estimated_bytes() (in module spacr.sra) estimates (spacr.qt.prerun.DiameterPanel property) estimates_from_settings() (in module spacr.plaque_growth) eval_kwargs() (spacr.model_compare.ModelConfig method) evaluate() (in module spacr.qt.widgets.formula) (in module spacr.qt.widgets.gate_console) evaluate_barcode_regex() (in module spacr.qt.widgets.barcode_regex) evaluate_blinded_reviews() (in module spacr.hit_investigation) evaluate_model_fit() (in module spacr.power_model) evaluate_model_performance() (in module spacr.deep_spacr) evaluate_predictions() (in module spacr.classifier_evaluation) EVALUATION_FILES (in module spacr.classifier_evaluation) EvaluationBundleDropHandler (class in spacr.qt.dnd_handlers)

event() (spacr.qt.widgets.module_hint_bar.ModuleHintBar method) (spacr.qt.widgets.provider_marks.ProviderMark method) (spacr.qt.widgets.setup_card.SetupCard method) event_loop_started() (in module spacr.qt.timing) eventFilter() (spacr.qt.app.MainWindow method) (spacr.qt.live_zoom.ColumnTextScale method) (spacr.qt.live_zoom.LiveZoomFilter method) (spacr.qt.screens.annotate.AnnotateScreen method) (spacr.qt.screens.app_screen.AppScreen method) (spacr.qt.screens.gate_editor.GateEditorScreen method) (spacr.qt.screens.organism_screen.OrganismScreen method) (spacr.qt.shortcuts.ShortcutOverlay method) (spacr.qt.sound.InputSoundFilter method) (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.availability_panel.AvailabilityPanel method) (spacr.qt.widgets.collapsible_splitter.CollapsibleSplitter method) (spacr.qt.widgets.collapsible_splitter.FocusCollapse method) (spacr.qt.widgets.collapsible_splitter.FoldSection method) (spacr.qt.widgets.column_aligned_row.ColumnAlignedRow method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) (spacr.qt.widgets.dock.Dock method) (spacr.qt.widgets.drawer.EdgeDrawer method) (spacr.qt.widgets.feature_dictionary.FeatureHelpFilter method) (spacr.qt.widgets.figure_grid.SearchFigureGrid method) (spacr.qt.widgets.figure_queue.FigureQueue method) (spacr.qt.widgets.figure_settings.FigureSettingsDialog method) (spacr.qt.widgets.hint_bar.HintBar method) (spacr.qt.widgets.home.HomePage method) (spacr.qt.widgets.measurement_scan_panel.WorkflowStep method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsGrid method) (spacr.qt.widgets.organism_diagram.OrganismDiagram method) (spacr.qt.widgets.preview_scale.PreviewScaleControl method) (spacr.qt.widgets.preview_scale.PreviewScaler method) (spacr.qt.widgets.qc_field_browser.QCFieldBrowser method) (spacr.qt.widgets.sample_project.SampleProjectDialog method) (spacr.qt.widgets.save_figure_dialog.SaveFigureDialog method) (spacr.qt.widgets.section.Section method) (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) (spacr.qt.widgets.test_data_chooser.TestDataChooser method) every_description() (spacr.qt.widgets.test_data_chooser.TestDataChooser method) evidence() (spacr.regex_infer.Proposal method) evidence_ports() (in module spacr.projects) exact_misiurewicz_center() (in module spacr.qt.widgets.fractal_mandelbrot) example_folder() (in module spacr.cli_download) (in module spacr.host_pathogen_example) (in module spacr.qt.ops_stitch_demo) example_images_destination() (spacr.qt.screens.app_screen.AppScreen method) example_measurements_db() (in module spacr.qt.widgets.measurements_example) example_measurements_folder() (in module spacr.qt.widgets.measurements_example) example_plate_folder() (in module spacr.example_archives) (in module spacr.qt.screens.mask) example_set() (in module spacr.example_archives) example_set_folder() (in module spacr.example_archives) ExampleDataError examples_root() (in module spacr.qt.make_masks_datasets) ExampleSet (class in spacr.example_archives) exchangeability_verdict() (in module spacr.permutation_qc) exclude_matching_rows() (in module spacr.row_exclusions) excluded_fields() (in module spacr.image_quality) exclusions() (spacr.qt.widgets.sweep_panel.SweepPanel method) execute_prune() (spacr.qt.screens.data_manager.DataManagerScreen method) executed_sql() (spacr.qt.widgets.column_picker.ColumnPickerDialog method) (spacr.qt.widgets.column_picker.SchemaReader method) ExecutionProfile (class in spacr.remote_execution) ExecutionProfileDialog (class in spacr.qt.screens.distributed_jobs) exists (spacr.artifacts.Artifact property) (spacr.model_zoo.ModelEntry property) (spacr.plate_measurements.PlateDatabase property) exists() (in module spacr.qt.path_probe) exit_code() (in module spacr.doctor) expand_host() (spacr.qt.widgets.dock.Dock method) expand_measure_arrays() (in module spacr.example_archives) expandingDirections() (spacr.qt.widgets.column_aligned_row.ColumnAlignedRow method) (spacr.qt.widgets.flow.FlowLayout method) expected_calibration_error() (in module spacr.classifier_evaluation) expected_canvas (spacr.ops_stitch.StitchedWell property) expected_chance_rate() (in module spacr.barcode_search) expected_channels() (in module spacr.model_check) expected_classes() (in module spacr.model_check) expected_hits (spacr.qt.widgets.power_design.DesignSpec property) expected_min_planes() (in module spacr.resume) expected_sampled_fractions() (in module spacr.io) experiment_root() (in module spacr.qt.widgets.cell_montage_view) ExperimentDesignScreen (class in spacr.qt.screens.experiment_design) explain() (in module spacr.qt.widgets.availability_panel) (spacr.projects.StaleArtifact method) (spacr.qt.widgets.hint_bar.HintBar method) explain_a_fractal_number() (in module spacr.qt.preferences) explain_causes() (in module spacr.chaining) explain_cellpose3() (in module spacr.submodules) explain_classifier() (in module spacr.surrogate) explain_cv_default_settings() (in module spacr.surrogate) explain_download_failure() (in module spacr.example_archives) explain_every_row() (in module spacr.qt.preferences) explain_flag() (in module spacr.seg_qc) explain_organelle_measurements() (in module spacr.settings) explain_through_the_bar() (in module spacr.qt.widgets.hint_bar) ExplainCvInputsDropHandler (class in spacr.qt.dnd_handlers) ExplainCvPanel (class in spacr.qt.screens.model_explanation) explainer_width() (in module spacr.qt.screens.settings_model) ExplainNavigator (class in spacr.qt.screens.activation) explains() (spacr.qt.widgets.hint_bar.HintBar method) explicit_settings() (in module spacr.macro) ExplorerError ExplorerResult (class in spacr.qt.widgets.feature_rank) ExplorerSpec (class in spacr.qt.widgets.feature_rank) exponential_decay() (in module spacr.timelapse) export() (in module spacr.flowview.export) (spacr.qt.screens.hit_list.HitListScreen method) (spacr.qt.screens.methods_export.MethodsExportScreen method) (spacr.qt.widgets.fast_plots.FastPlot method) (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) export_all_rois() (spacr.qt.screens.make_masks.MakeMasksScreen method) export_anndata() (in module spacr.anndata_export) export_anndata_set() (in module spacr.anndata_export) export_annotation() (in module spacr.filters) export_bundle() (spacr.qt.widgets.fast_plots.FastPlot method) export_colour() (in module spacr.figure_style) export_csv() (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.db_browser.ReadOnlyDb method) (spacr.qt.screens.outliers.OutliersScreen method) (spacr.qt.screens.pca.PCAScreen method) (spacr.qt.screens.plate_view.PlateViewScreen method) (spacr.qt.widgets.pivot_builder.PivotPanel method) export_dictionary() (in module spacr.feature_dict) export_field_rois() (spacr.qt.screens.make_masks.MakeMasksScreen method) export_file_annotation() (in module spacr.omero) export_gate() (in module spacr.filters) export_gates() (spacr.qt.screens.gate_editor.GateEditorScreen method) export_hits() (spacr.qt.screens.control_chart.ControlChartScreen method) export_map_annotation() (in module spacr.omero) export_plate_summaries() (in module spacr.omero) export_points() (spacr.qt.counting_tool.CountingPanel method) (spacr.qt.screens.control_chart.ControlChartScreen method) export_ranking() (spacr.qt.screens.feature_explorer.FeatureExplorerScreen method) export_rois() (in module spacr.mask_io) export_run() (in module spacr.notebook_export) export_scene() (in module spacr.figures.scene) export_settings() (spacr.qt.widgets.fast_plots.FastPlot method) (spacr.qt.widgets.grouped_plot.GroupedPlot method) export_sidecars() (in module spacr.qt.widgets.figure_settings) export_size() (spacr.qt.widgets.fast_plots.FastPlot method) export_styled() (spacr.qt.widgets.fast_plots.FastPlot method) export_summary() (spacr.qt.counting_tool.CountingPanel method) export_tag_annotation() (in module spacr.omero) export_to() (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) ExportResult (class in spacr.anndata_export) (class in spacr.omero) exposure_target() (in module spacr.qt.imagery) (in module spacr.qt.space) ext (spacr.convert.SourceImage property) extent() (spacr.layers.Spacing method) extents() (spacr.qt.widgets.collapsible_splitter.CollapsibleSplitter method) external_record() (in module spacr.curation_queue) ExternalMaskInputWidget (class in spacr.qt.widgets.external_mask_inputs) ExternalMaskPlan (class in spacr.external_masks) ExternalMaskResult (class in spacr.external_masks) ExternalMasksDropHandler (class in spacr.qt.dnd_handlers) extract_bases() (in module spacr.ops_sbs) extract_boundaries() (in module spacr.utils) extract_crop() (in module spacr.crops) extract_crops() (in module spacr.crops) extract_example_archive() (in module spacr.example_archives) extract_features() (in module spacr.utils) extract_numbers() (in module spacr.methods_export) extract_seeds() (in module spacr.run_journal) extract_sequence_and_quality() (in module spacr.sequencing) extract_tar_bz2_files() (in module spacr.utils)

F

f1 (spacr.scorecard.Match property) face_color (spacr.layers.PointsLayer property) facet_col (spacr.qt.widgets.trellis_spec.TrellisSpec property) facet_grid() (in module spacr.qt.widgets.graph_spec) facet_row (spacr.qt.widgets.trellis_spec.TrellisSpec property) FacetGrid (class in spacr.qt.widgets.graph_spec) FacetPanel (class in spacr.qt.widgets.graph_spec) factor (spacr.qt.widgets.motility_preview.Calibration property) facts (spacr.qt.widgets.gene_panel.GenePanel property) facts() (in module spacr.gene_facts) facts_for() (in module spacr.gene_facts) fades() (in module spacr.qt.widgets.field_fade) failed (spacr.batch.QueueResult property) (spacr.hyperparam.SearchResult property) (spacr.seg_qc.FieldQC property) FailedBound (class in spacr.qt.mask_engine) failing_fields (spacr.seg_qc.QCDigest property) Failure (class in spacr.errors) failure_rate (spacr.errors.RunLedger property) failures (spacr.errors.RunLedger property) faithfulness() (in module spacr.attribution) fallback_record() (in module spacr.intensity_rescale) false_alarm_rate() (spacr.qt.widgets.control_chart.ControlChartResult method) false_negatives (spacr.scorecard.Match property) false_positives (spacr.scorecard.Match property) families() (in module spacr.object_settings_table) (spacr.qt.widgets.fast_plots.VolcanoPlot method) family_group() (in module spacr.regression_families) family_ids() (spacr.qt.screens.lineage.LineageScreen method) family_keys() (spacr.qt.screens.lineage.LineageScreen method) family_label() (in module spacr.regression_families) family_labels() (in module spacr.hits) family_note() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) fast_panel() (in module spacr.response_distribution) FastPlot (class in spacr.qt.widgets.fast_plots) feature (spacr.qt.widgets.gene_panel.GenePanel property) (spacr.qt.widgets.gene_tile.GeneTilePanel property) feature_column() (spacr.schema.ObjectTableSchema method) feature_columns() (in module spacr.anndata_export) (in module spacr.utils) feature_docs() (in module spacr.feature_dict) feature_folder_name() (in module spacr.utils) feature_names (spacr.profiler.FittedLinear property) FeatureDictionaryDialog (class in spacr.qt.widgets.feature_dictionary) FeatureDictionaryPanel (class in spacr.qt.widgets.feature_dictionary) FeatureDoc (class in spacr.feature_dict) FeatureEntry (class in spacr.feature_dict) FeatureExplorerPanel (class in spacr.qt.widgets.feature_explorer) FeatureExplorerScreen (class in spacr.qt.screens.feature_explorer) FeatureHelpFilter (class in spacr.qt.widgets.feature_dictionary) FeaturePicker (class in spacr.qt.widgets.pca_view) features_dir() (in module spacr.custom_features) FeatureScope (class in spacr.feature_dict) FeatureScore (class in spacr.qt.widgets.feature_rank) fetch() (in module spacr.example_data) (in module spacr.model_zoo) (in module spacr.uniprot) fetch_figures() (in module spacr.plaque_papers) fetch_filtered_paths() (in module spacr.qt.annotate_engine) fetch_genes() (in module spacr.uniprot) fetch_more() (spacr.qt.screens.db_browser.DbBrowserScreen method) fetch_page() (in module spacr.qt.annotate_engine) fetch_paper() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) fetch_paper_to_folder() (in module spacr.plaque_papers) fetch_papers() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) fetch_reads() (in module spacr.sra) fetch_release_notes() (in module spacr.updater) fetch_verdicts() (in module spacr.suggest) Fetched (class in spacr.example_data) fetchMore() (spacr.qt.screens.db_browser.PreviewModel method) fidelity_improvement (spacr.surrogate.SurrogateResult property) Field (class in spacr.qt.widgets.umap_figure_settings) field (spacr.layers.LabelsLayer property) (spacr.schema.ObjectID property) field() (spacr.regression_summary.RunSummary method) field_chrome() (in module spacr.qt.theme) field_fade_alpha() (in module spacr.qt.theme) field_fade_enabled() (in module spacr.qt.widgets.field_fade) field_fade_profile() (in module spacr.qt.theme) field_fade_qss() (in module spacr.qt.widgets.field_fade) field_for() (spacr.illumination.IlluminationModel method) field_geometry() (in module spacr.qt.widgets.animation_zoom) field_id() (in module spacr.schema) field_identity() (in module spacr.resume) field_ids() (spacr.pipeline_v2.FilenameMapper method) field_index() (in module spacr.schema) field_is_list() (in module spacr.qt.widgets.column_picker) field_key() (in module spacr.lineage) field_names() (spacr.qt.screens.model_compare.ModelCompareScreen method) (spacr.qt.screens.model_zoo.ModelZooScreen method) field_of() (in module spacr.qt.help_search) field_ring_mask() (in module spacr.qt.widgets.animation_zoom) field_stem() (in module spacr.qt.mask_engine) field_table_destination() (in module spacr.measure) field_table_settings() (in module spacr.measure) field_text() (in module spacr.qt.widgets.column_picker) field_values() (in module spacr.qt.widgets.column_picker) FieldAddress (class in spacr.seg_qc) FieldBenchmark (class in spacr.model_zoo) FieldEvidence (class in spacr.regex_infer) FieldID (class in spacr.schema) FieldKey (class in spacr.layers) FieldQC (class in spacr.seg_qc) FieldRow (class in spacr.measure) fields (spacr.model_compare.ComparisonReport property) (spacr.model_zoo.BenchmarkResult property) fields() (spacr.qt.roi_tool.RoiPanel method) fields_folder() (spacr.qt.screens.model_zoo.ModelZooScreen method) fields_in() (in module spacr.qt.dialogs) fieldset_id() (in module spacr.model_zoo) FieldTable (class in spacr.measure) Figure (class in spacr.plaque_papers) (class in spacr.report) figure() (spacr.qt.screens.train_compare.TrainCompareScreen method) (spacr.qt.widgets.graph_builder.GraphCanvas method) (spacr.qt.widgets.sweep_panel.SweepPanel method) figure_bg_is_transparent() (in module spacr.qt.preferences) figure_cap() (spacr.qt.screens.report.ReportScreen method) figure_color_is_auto() (in module spacr.qt.preferences) figure_dpi() (spacr.qt.widgets.figure_grid.SearchFigureGrid static method) figure_folders() (in module spacr.plaque_papers) figure_for() (spacr.qt.widgets.figure_queue.FigureQueue method) figure_format() (spacr.qt.widgets.figure_grid.SearchFigureGrid static method) figure_output_preferences() (in module spacr.plot) figure_pass() (in module spacr.qt.widgets.plaque_preview) figure_path() (in module spacr.plot) (spacr.qt.widgets.figure_grid.SearchFigureGrid method) figure_save_mode() (in module spacr.figure_style) figure_style() (in module spacr.figures.style) figure_text_items() (in module spacr.qt.widgets.figure_queue) figure_text_size_override() (in module spacr.qt.widgets.figure_queue) figure_titles() (spacr.qt.widgets.figure_queue.FigureQueue method) figure_to_pixmap() (in module spacr.qt.screens.hyperparam) FigureGridView (class in spacr.qt.widgets.figure_grid_view) FigureQueue (class in spacr.qt.widgets.figure_queue) figures_from_pdf() (in module spacr.plaque_papers) figures_in_folder() (in module spacr.plaque_papers) FigureSettingsDialog (class in spacr.qt.widgets.figure_settings) FigureStyle (class in spacr.style_base) file_count() (spacr.qt.widgets.external_mask_inputs.ExternalMaskInputWidget method) file_issue() (in module spacr.qt.ai.issue_report) file_list() (spacr.data_manager.PrunePlan method) file_sink() (in module spacr.figure_sink) file_without_review() (in module spacr.qt.ai.issue_report) filename (spacr.sra.RunFile property) FilenameMapper (class in spacr.pipeline_v2) FilenameRecord (class in spacr.pipeline_v2) FilePathListWidget (class in spacr.qt.widgets.file_list) filepaths_to_database() (in module spacr.utils) files (spacr.example_data.Fetched property) (spacr.image_import.ImportPlan property) files() (spacr.qt.widgets.import_workbench.ImportWorkbench method) files_under() (in module spacr.qt.widgets.measure_input_table) filesystem_type() (in module spacr.database_concurrency) fill_holes() (in module spacr.qt.mask_engine) fill_holes_in_mask() (in module spacr.utils) fill_host_pathogen_preview_card() (in module spacr.qt.widgets.host_pathogen_preview) fill_label_holes() (in module spacr.qt.mask_engine) fill_polygon() (in module spacr.qt.mask_engine) fill_psf_settings() (in module spacr.point_spread) FilmStrip (class in spacr.qt.widgets.timelapse_movie) filter (spacr.qt.linked_selection.LinkedSelection property) filter() (spacr.hits.HitList method) (spacr.logging_util.LevelSetFilter method) (spacr.runctx.RunIdFilter method) filter_and_save_csv() (in module spacr.utils) filter_batch() (in module spacr.image_quality) filter_bound() (in module spacr.qt.annotate_engine) FILTER_BOUNDS (in module spacr.qt.mask_engine) filter_channels_pil() (in module spacr.qt.annotate_engine) filter_columns() (in module spacr.utils) filter_dataframe_features() (in module spacr.utils) filter_files() (spacr.resume.ResumeState method) filter_for() (spacr.qt.widgets.gate_spec.GateSet method) filter_installed (spacr.qt.sound.SoundEngine property) filter_key() (in module spacr.qt.annotate_engine) FILTER_KEYS (in module spacr.qt.mask_engine) filter_objects() (in module spacr.qt.mask_engine) filter_properties() (in module spacr.qt.mask_engine) filter_removals() (in module spacr.qt.mask_engine) filter_report() (in module spacr.qt.mask_engine) filter_selection() (in module spacr.annotation_dataset) filtered() (spacr.qt.screens.hit_list.HitListScreen method) (spacr.qt.widgets.outlier_model.OutlierResult method) filtered_frame() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) FilterError, [1] FilterRemoval (class in spacr.qt.mask_engine) filters() (spacr.qt.screens.make_masks.ObjectFilterList method) filters_need_intensity() (in module spacr.qt.mask_engine) finalize() (spacr.errors.RunLedger method) find() (spacr.batch.Queue method) (spacr.counting.CountingSession method) (spacr.lineage.LineageNode method) (spacr.qt.plate_queue.PlateQueue method) find_crop_folders() (in module spacr.crops) find_evaluation_bundles() (in module spacr.classifier_evaluation) find_image_folders_nearby() (in module spacr.qt.dnd) find_issue_by_fingerprint() (in module spacr.qt.ai.github_auth) find_last_annotated_offset() (in module spacr.qt.annotate_engine) find_last_run_id() (in module spacr.crashreport) find_mask_stacks() (in module spacr.seg_qc) find_menu() (in module spacr.qt.first_run) find_non_overlapping_position() (in module spacr.utils) find_old_installs() (in module spacr.install_cleanup) find_optimal_threshold() (in module spacr.ml) find_peaks() (in module spacr.ops_sbs) find_plaque_regions() (in module spacr.plaque_papers) find_plaques_in_all_wells() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) find_results_table() (in module spacr.qt.screens.volcano) (in module spacr.qt.widgets.regression_results) find_results_tables() (in module spacr.qt.widgets.regression_results) find_runs() (in module spacr.train_compare) find_scorecards() (in module spacr.seg_qc) find_summary_file() (in module spacr.qt.widgets.regression_results) find_token() (in module spacr.qt.widgets.model_share) find_urls() (in module spacr.qt.ai.pty_sign_in) find_uv() (in module spacr.updater) Finding (class in spacr.run_compare) (class in spacr.seg_qc) finding_targets() (in module spacr.qt.widgets.qc_field_browser) findings_text() (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) Fingerprint (class in spacr.artifacts) fingerprint() (in module spacr.checkpoint) (spacr.embeddings.EmbeddingSpec method) fingerprint_of() (in module spacr.qt.ai.issue_report) finish() (in module spacr.qt.detect_chain) (spacr.checkpoint.CheckpointStore method) (spacr.illumination.SegmentationIlluminationSession method) finish_drag() (spacr.qt.widgets.plate_map_picker.PlateMapPicker method) finish_recording() (in module spacr.macro) finish_recrop() (spacr.qt.screens.make_masks.MakeMasksScreen method) finish_well_drag() (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) first_supported_image() (in module spacr.qt.widgets.live_preview) fishers_odds() (in module spacr.utils) fit() (in module spacr.group_lasso) (spacr.qt.screens.dose_response.DoseResponseScreen method) (spacr.qt.widgets.zoom_view.ZoomableImageView method) fit_and_evaluate() (in module spacr.power_model) fit_diagram() (spacr.qt.widgets.workflow_diagram.WorkflowView method) fit_dose_response() (in module spacr.qt.widgets.dose_response) fit_finished (spacr.qt.widgets.measurement_scan_panel.ColumnRegressionPanel attribute) fit_frame() (in module spacr.qt.widgets.dose_response) fit_hit_attribution() (in module spacr.hit_attribution) fit_mixed_model() (in module spacr.ml) fit_mixed_reml_torch() (in module spacr.mixed_gpu) fit_model() (in module spacr.power_model) fit_on_controls() (in module spacr.annotation_umap_qc) fit_quality() (in module spacr.trial_metrics) fit_quality_note() (in module spacr.ml) fit_started (spacr.qt.widgets.measurement_scan_panel.ColumnRegressionPanel attribute) fit_surrogate() (in module spacr.surrogate) fit_temperature() (in module spacr.classifier_evaluation) fit_unit (spacr.regression_qc.RegressionQCContext property) FitReport (class in spacr.regression_annotation) fits() (in module spacr.graph_types) fitted() (spacr.sp_stats.MedianPolish method) FittedLinear (class in spacr.profiler) fitting_width() (spacr.qt.widgets.dock.Dock method) five_parameter_logistic() (in module spacr.qt.widgets.dose_response)

fix (spacr.chaining.NextStep property) (spacr.chaining.StaleNote property) flag_counts() (spacr.hits.HitList method) flag_single_guide_hits() (in module spacr.guide_concordance) flag_truncated_t() (in module spacr.zstack) flag_truncated_z() (in module spacr.zstack) flagged (spacr.qt.widgets.control_chart.ControlChartResult property) flagged_share (spacr.qt.widgets.outlier_model.OutlierResult property) flagged_wells() (spacr.qt.widgets.outlier_model.OutlierResult method) flags() (spacr.qt.screens.db_browser.PreviewModel method) (spacr.qt.screens.foreign.ColumnMapModel method) (spacr.qt.screens.image_import.AnswerModel method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsModel method) Flash (class in spacr.qt.widgets.flash) FlatButton (class in spacr.qt.widgets.preview_controls) FlatComboBox (class in spacr.qt.widgets.preview_controls) FlatSpinBox (class in spacr.qt.widgets.preview_controls) fleiss_kappa() (in module spacr.agreement) flood_region() (in module spacr.qt.wand_rescue) flow_rgb() (in module spacr.qt.screens.make_masks) flow_towards() (spacr.qt.widgets.setup_card.SetupCard method) FlowHost (class in spacr.qt.widgets.flow) FlowLayout (class in spacr.qt.widgets.flow) flush() (spacr.checkpoint.CheckpointStore method) (spacr.qt.widgets.data_filter_panel.DataFilterPanel method) (spacr.qt.widgets.umap_figure_settings.UmapFigureSettings method) fmt_duration() (in module spacr.batch) FocalLossWithLogits (class in spacr.utils) focus_field() (in module spacr.qt.help_search) focus_slot (spacr.qt.screens.annotate.AnnotateScreen property) FocusCollapse (class in spacr.qt.widgets.collapsible_splitter) focusInEvent() (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) (spacr.qt.widgets.height_grip.HeightGrip method) focusOutEvent() (spacr.qt.help_search.HelpSearchField method) (spacr.qt.widgets.height_grip.HeightGrip method) fold() (spacr.flowview.collector.Collector method) fold_button() (spacr.qt.widgets.measurement_scan_panel.WorkflowStep method) fold_card() (in module spacr.qt.widgets.collapsible_splitter) fold_column_name() (in module spacr.schema) fold_description() (in module spacr.qt.screens.make_masks) (in module spacr.qt.screens.map_barcodes) fold_into_classes() (in module spacr.classify_classes) fold_label() (in module spacr.qt.widgets.fold_strip) fold_mode() (spacr.qt.screens.train_compare.TrainCompareScreen method) fold_previews() (in module spacr.qt.screens.mask) fold_set() (in module spacr.qt.screens.mask) FoldButton (class in spacr.qt.widgets.fold_strip) folded_children() (in module spacr.qt.app) folded_fallback() (in module spacr.qt.widgets.fold_strip) folded_module_title() (in module spacr.qt.screens.map_barcodes) folded_modules() (in module spacr.qt.widgets.fold_strip) folded_screen() (spacr.qt.screens.make_masks.MakeMasksScreen method) FoldedModulePanel (class in spacr.qt.screens.make_masks) Folder (class in spacr.qt.widgets.foldable) folder (spacr.curation_queue.CurationQueue property) folder_names() (in module spacr.classify_classes) FolderTemplate (class in spacr.qt.folder_metadata) FoldingSummaryView (class in spacr.qt.widgets.folding_summary) FoldLeakageAudit (class in spacr.classifier_evaluation) FoldOpener (class in spacr.qt.screens.map_barcodes) FoldSection (class in spacr.qt.widgets.collapsible_splitter) FoldStrip (class in spacr.qt.widgets.fold_strip) follow_canvas() (in module spacr.qt.gui_scale) follow_device_ratio() (in module spacr.qt.hidpi) follow_fold() (spacr.qt.widgets.card.Card method) follow_parent() (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) follow_the_form() (spacr.qt.widgets.object_grid_binding.ObjectGridBinding method) follow_the_theme() (spacr.qt.widgets.fast_plots.FastPlot method) font() (spacr.qt.widgets.folding_summary.FoldingSummaryView method) font_colour() (spacr.qt.widgets.fast_plots.FastPlot method) font_dir() (in module spacr.figure_font) font_names() (in module spacr.style_base) font_px() (in module spacr.qt.theme) font_rc() (in module spacr.style_base) font_size (spacr.qt.widgets.dna_rain.DnaRainEngine property) font_size() (spacr.qt.widgets.dna_rain.DnaRainSettingsBar method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) (spacr.qt.widgets.fast_plots.FastPlot method) font_size_rules() (in module spacr.qt.live_zoom) for_get_regex() (in module spacr.import_plan) for_grid() (spacr.layers.Canvas class method) for_plate() (spacr.run_compare.CountDiff method) for_table() (in module spacr.qt.widgets.regression_results) (spacr.barcode_search.BarcodeSearchReport method) force_quit_now() (in module spacr.qt.shutdown) force_restart() (spacr.qt.screens.app_screen.AppScreen method) foreground_stems() (in module spacr.qt.make_masks_datasets) ForeignProjectDropHandler (class in spacr.qt.dnd_handlers) ForeignScreen (class in spacr.qt.screens.foreign) forest_key_collisions() (in module spacr.lineage) forget() (in module spacr.qt.ask_for_the_path) (in module spacr.qt.path_probe) (spacr.artifacts.Registry method) forget_decisions() (in module spacr.qt.dnd_handlers) forget_disclosure() (in module spacr.qt.settings_search) forget_outline_masks() (in module spacr.qt.annotate_engine) forget_plot_state() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) forget_run() (spacr.qt.widgets.figure_queue.FigureQueue method) (spacr.qt.widgets.regression_results.RegressionResultsPanel method) forget_selected_root() (spacr.qt.screens.project_browser.ProjectBrowserScreen method) format() (spacr.qt.widgets.eliding.ProgressLine method) format_4d() (in module spacr.zstack) format_agreement() (in module spacr.agreement) format_benchmarks() (in module spacr.model_zoo) format_class_balance_report() (in module spacr.io) format_comparison() (in module spacr.model_compare) (in module spacr.train_compare) format_coverage_summary() (in module spacr.active_learning) format_dashboard() (in module spacr.qt.widgets.qc_summary) format_digest() (in module spacr.seg_qc) format_edge_report() (in module spacr.plate_qc) format_estimates() (in module spacr.diameter) format_findings() (in module spacr.qt.widgets.plate_layout) format_graph() (in module spacr.pipeline_graph) format_kappa() (in module spacr.qt.screens.agreement) format_learning_curve() (in module spacr.active_learning) format_map_value() (in module spacr.omero) format_model_card() (in module spacr.deep_spacr) format_params() (in module spacr.qt.screens.hyperparam) format_path_for_system() (in module spacr.utils) format_per_class_accuracy() (in module spacr.deep_spacr) format_plan() (in module spacr.align) (in module spacr.foreign) format_problems() (in module spacr.batch) format_project() (in module spacr.projects) format_projects() (in module spacr.projects) format_prune_plan() (in module spacr.data_manager) format_qc_report() (in module spacr.regression_qc) format_qc_table() (in module spacr.timeflows_qc) format_queue_summary() (in module spacr.active_learning) format_readiness() (in module spacr.ports) format_recommendations() (in module spacr.run_recommendations) format_report() (in module spacr.benchmark) (in module spacr.doctor) (in module spacr.validate) format_resume() (in module spacr.resume) format_run_diff() (in module spacr.run_journal) format_run_summary() (in module spacr.regression_summary) format_scorecard() (in module spacr.seg_qc) format_scores() (in module spacr.qt.screens.hyperparam) format_search() (in module spacr.hyperparam) format_table() (spacr.barcode_search.BarcodeSearchReport method) format_tooltip() (in module spacr.qt.screens.settings_model) format_usage() (in module spacr.data_manager) format_value() (in module spacr.qt.widgets.pivot_spec) format_version_info() (in module spacr.version) format_zoo() (in module spacr.model_zoo) formula_for() (in module spacr.qt.screens.settings_model) FormulaDialog (class in spacr.qt.widgets.formula_editor) FormulaError FormulaPanel (class in spacr.qt.widgets.formula_editor) formulas() (spacr.qt.widgets.formula_editor.FormulaPanel method) FormulaSet (class in spacr.qt.widgets.formula) forward() (spacr.attribution.ClassScoreModel method) (spacr.utils.CustomCellClassifier method) (spacr.utils.EarlyFusion method) (spacr.utils.FocalLossWithLogits method) (spacr.utils.GradCAM method) (spacr.utils.MultiScaleBlockWithAttention method) (spacr.utils.ResNet method) (spacr.utils.ScaledDotProductAttention method) (spacr.utils.SelfAttention method) (spacr.utils.SpatialAttention method) (spacr.utils.TorchModel method) (spacr.utils.TorchModel_v2 method) found (spacr.report.Section property) found_sections (spacr.report.Report property) found_sections() (spacr.qt.screens.report.ReportScreen method) four_parameter_logistic() (in module spacr.qt.widgets.dose_response) FovMovie (class in spacr.qt.widgets.timelapse_movie) fps() (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) frac_missing (spacr.anndata_export.ExportResult property) fraction (spacr.feature_dict.Coverage property) fraction() (spacr.counting.CountingSession method) (spacr.qt.bridge.RunHandle method) (spacr.qt.widgets.loading_screen.LoadingScreen method) fraction_column() (in module spacr.figures.distributions) fractions_from_counts() (in module spacr.cell_montage) fragmentation_events (spacr.qt.widgets.timelapse_preview.TrackStats property) frame (spacr.qt.screens.outliers.OutliersScreen property) (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel property) frame() (spacr.layers.FieldKey method) (spacr.measurement_scan.ScanResult method) (spacr.qt.screens.convert.PlanTableModel method) (spacr.qt.widgets.fast_plots.FastPlot method) (spacr.qt.widgets.formula_editor.FormulaPanel method) (spacr.qt.widgets.graph_spec.FacetPanel method) (spacr.qt.widgets.grouped_plot.GroupedPlot method) (spacr.qt.widgets.timelapse_preview.FrameSequence method) (spacr.qt.widgets.trellis_spec.TrellisPanel method) frame_channel() (in module spacr.qt.widgets.timelapse_preview) frame_count() (spacr.qt.widgets.timelapse_movie.FovMovie method) frame_interval_summary() (in module spacr.timeflows_qc) frames (spacr.qt.resonance.Resonance property) frames_of() (spacr.curation.TrackCuration method) frames_shaded() (spacr.qt.widgets.ambient.AmbientWidget method) FrameSequence (class in spacr.qt.widgets.timelapse_preview) free_megabytes() (in module spacr.qt.memory_budget) freed (spacr.qt.resource_cleanup.Reclaim property) freed_mb (spacr.qt.resource_cleanup.BudgetSweep property) from_coefficients() (in module spacr.profiler) from_dict() (spacr.batch.Job class method) (spacr.batch.Queue class method) (spacr.curation.CurationEdit class method) (spacr.flowview.model.RunGraph class method) (spacr.qt.widgets.control_chart.ControlChartSpec class method) (spacr.qt.widgets.dose_response.DoseResponseSpec class method) (spacr.qt.widgets.feature_rank.ExplorerSpec class method) (spacr.qt.widgets.formula.ColumnFormula class method) (spacr.qt.widgets.formula.FormulaSet class method) (spacr.qt.widgets.gate_spec.GateSet class method) (spacr.qt.widgets.graph_spec.GraphSpec class method) (spacr.qt.widgets.outlier_model.OutlierSpec class method) (spacr.qt.widgets.pca_model.PCASpec class method) (spacr.qt.widgets.pivot_spec.PivotSpec class method) (spacr.qt.widgets.plaque_preview.OverlayStyle class method) (spacr.qt.widgets.trellis_spec.TrellisSpec class method) (spacr.remote_execution.ExecutionProfile class method) (spacr.remote_execution.RemoteJob class method) (spacr.roi.RegionOfInterest class method) (spacr.roi.RoiSet class method) (spacr.umap_search.UmapRecipe class method) (spacr.volcano_style.VolcanoStyle class method) from_drag() (spacr.qt.widgets.gate_spec.EllipseGate class method) from_ellipse() (spacr.qt.widgets.gate_spec.CylinderGate class method) from_frame() (spacr.selection.Selection class method) from_json() (spacr.flowview.model.RunGraph class method) (spacr.qt.recipes.Recipe class method) (spacr.qt.widgets.control_chart.ControlChartSpec class method) (spacr.qt.widgets.dose_response.DoseResponseSpec class method) (spacr.qt.widgets.dose_response.PlateSpec class method) (spacr.qt.widgets.feature_rank.ExplorerSpec class method) (spacr.qt.widgets.formula.ColumnFormula class method) (spacr.qt.widgets.formula.FormulaSet class method) (spacr.qt.widgets.gate_spec.GateSet class method) (spacr.qt.widgets.graph_spec.GraphSpec class method) (spacr.qt.widgets.outlier_model.OutlierSpec class method) (spacr.qt.widgets.pca_model.PCASpec class method) (spacr.qt.widgets.pivot_spec.PivotSpec class method) (spacr.qt.widgets.trellis_spec.TrellisSpec class method) from_keys() (spacr.selection.Selection class method) from_limits() (spacr.qt.widgets.gate_spec.BoxGate class method) from_map() (spacr.layers.Spacing class method) from_mapping() (spacr.model_compare.ModelConfig class method) from_polygon() (spacr.qt.widgets.gate_spec.PrismGate class method) from_qimage() (in module spacr.qt.widgets.animation_zoom) from_row() (spacr.foreign.ColumnMap class method) (spacr.layers.FieldKey class method) from_shapes_layer() (spacr.roi.RoiSet class method) from_table() (in module spacr.object_settings_table) from_value() (spacr.external_masks.InputGroup class method) full_plate_grid() (in module spacr.figures.plates) full_text() (spacr.qt.widgets.api_help_label.ApiHelpLabel method) (spacr.qt.widgets.eliding.ElidingLabel method) (spacr.qt.widgets.eliding.ElidingPushButton method) func_name (spacr.cli.Module property) function_trace_enabled() (in module spacr.logging_util)

G

gain (spacr.qt.sound.SoundSettings property) gain_stack() (spacr.illumination.IlluminationField method) galaxy() (in module spacr.qt.space) gap (spacr.attribution.SanityCheck property) Gate (class in spacr.qt.widgets.gate_spec) gate (spacr.qt.bridge.RunHandle property) gate_at() (spacr.qt.widgets.gate_editor.GateCanvas method) gate_colour() (spacr.qt.widgets.gate_editor.GateCanvas method) gate_from_dict() (in module spacr.qt.widgets.gate_spec) gate_from_drag() (spacr.qt.widgets.gate_editor.GateCanvas method) gate_from_screen_outline() (spacr.qt.widgets.gate_editor.GateCanvas method) gate_from_view() (spacr.qt.widgets.gate_editor.GateEditorPanel method) gate_mask_over_table() (in module spacr.filters) gate_paths() (in module spacr.qt.annotate_engine) GateCanvas (class in spacr.qt.widgets.gate_editor) GateClause (class in spacr.qt.widgets.gate_spec) GateConsole (class in spacr.qt.widgets.gate_console) GateEditorPanel (class in spacr.qt.widgets.gate_editor) GateEditorScreen (class in spacr.qt.screens.gate_editor) GateEditorSettings (class in spacr.qt.widgets.gate_settings) GateError GateLibraryError gates (spacr.qt.widgets.gate_editor.GateCanvas property) (spacr.qt.widgets.gate_editor.GateEditorPanel property) GateSearchPanel (class in spacr.qt.widgets.gate_search_panel) GateSet (class in spacr.qt.widgets.gate_spec) GateSettingsDialog (class in spacr.qt.widgets.gate_settings) GateStats (class in spacr.qt.widgets.gate_spec) GateTree (class in spacr.qt.widgets.gate_editor) gather_model_estimate() (in module spacr.power_model) gaussian_psf() (in module spacr.point_spread) gemini_path() (in module spacr.qt.widgets.provider_marks) GeminiCliProvider (class in spacr.qt.ai.providers) gene() (spacr.hits.HitList method) gene_effects() (in module spacr.group_lasso) gene_fraction_matrix() (in module spacr.guide_permutation) gene_fractions() (in module spacr.gene_measurement_sweep) gene_freedman_lane_test() (in module spacr.guide_permutation) gene_number() (in module spacr.annotation) gene_of() (in module spacr.hits) gene_of_guide() (in module spacr.gene_measurement_sweep) gene_tile() (in module spacr.gene_tile) GeneCandidate (class in spacr.gene_tile) GeneFacts (class in spacr.gene_facts) GenePanel (class in spacr.qt.widgets.gene_panel) generate() (spacr.qt.screens.methods_export.MethodsExportScreen method) (spacr.qt.screens.report.ReportScreen method) generate_activation_map() (in module spacr.deep_spacr) generate_annotation_dataset() (in module spacr.annotation_dataset) generate_barcode_csv() (in module spacr.qt.synthetic) generate_barecode_mapping() (in module spacr.sequencing) generate_cellpose_masks() (in module spacr.object) generate_cellpose_masks_sam() (in module spacr.object) generate_cellpose_train_set() (in module spacr.measure) generate_cellpose_train_test() (in module spacr.io) generate_classify_demo() (in module spacr.qt.synthetic) generate_colors() (in module spacr.utils) generate_crop_demo() (in module spacr.qt.synthetic) generate_cv_loaders() (in module spacr.io) generate_cytoplasm_mask() (in module spacr.utils) generate_dataset() (in module spacr.io) generate_dataset_from_lists() (in module spacr.io) generate_floats() (in module spacr.sim) generate_fraction_map() (in module spacr.utils) generate_gene_list() (in module spacr.sim) generate_gene_weights() (in module spacr.sim) generate_image_path_map() (in module spacr.utils) generate_image_umap() (in module spacr.core) generate_integers() (in module spacr.sim) generate_integrated_gradients() (spacr.utils.IntegratedGradients method) generate_loaders() (in module spacr.io) generate_map_barcodes_demo() (in module spacr.qt.synthetic) generate_mask_demo() (in module spacr.qt.synthetic) generate_mask_random_cmap() (in module spacr.plot) generate_masks_from_imgs() (in module spacr.spacr_cellpose) generate_measure_demo() (in module spacr.qt.synthetic) generate_ml_scores() (in module spacr.ml) generate_object_dataset() (in module spacr.measure) generate_organelle_masks_sam() (in module spacr.object) generate_parameters() (in module spacr.sim) generate_path_list_from_db() (in module spacr.utils) generate_plate_heatmap() (in module spacr.plot) generate_plate_map() (in module spacr.sim) generate_power_law_distribution() (in module spacr.sim) generate_score_heatmap() (in module spacr.submodules) (in module spacr.toxo) generate_screen_graphs() (in module spacr.core) generate_sections() (in module spacr.qt.ai.manuscript) generate_shap_summary_plot() (in module spacr.sim) generate_synthetic_fastq() (in module spacr.qt.synthetic) generate_timelapse_demo() (in module spacr.qt.synthetic) generate_training_dataset() (in module spacr.io) generate_well_score() (in module spacr.sim) GeneTile (class in spacr.gene_tile) GeneTilePanel (class in spacr.qt.widgets.gene_tile) geojson_to_masks() (in module spacr.mask_io) get() (spacr.artifacts.Registry method) (spacr.crops.CropSource method) (spacr.crops.MergedCropSource method) (spacr.crops.PngCropSource method) (spacr.flowview.thumbs.ThumbnailCache method) (spacr.layers.LayerStack method) (spacr.qt.regex_detect.MetadataRecord method) (spacr.qt.widgets.dose_response.DoseResponseSet method) (spacr.qt.widgets.gate_canvas.AxisCutoffs method) (spacr.qt.widgets.gate_spec.GateSet method) (spacr.regression_summary.SummarySection method) (spacr.remote_execution.JobStore method) (spacr.remote_execution.ProfileStore method) (spacr.utils.Cache method) get_ai_on_by_default() (in module spacr.qt.preferences) get_ambient_animation() (in module spacr.qt.preferences) get_ambient_blur() (in module spacr.qt.preferences) get_ambient_density() (in module spacr.qt.preferences) get_ambient_drift_direction() (in module spacr.qt.preferences) get_ambient_enabled() (in module spacr.qt.preferences) get_ambient_palette() (in module spacr.qt.preferences) get_ambient_resolution() (in module spacr.qt.preferences) get_ambient_size() (in module spacr.qt.preferences) get_ambient_speed() (in module spacr.qt.preferences) get_ambient_theme() (in module spacr.qt.preferences) get_analyze_plaque_settings() (in module spacr.settings) get_analyze_reads_default_settings() (in module spacr.settings) get_analyze_recruitment_default_settings() (in module spacr.settings) get_app() (in module spacr.plugins) get_array() (spacr.crops.MergedCropSource method) get_auto_file_issues() (in module spacr.qt.ai.settings) get_automated_motility_assay_default_settings() (in module spacr.settings) get_cache_ceiling_mb() (in module spacr.qt.preferences) get_categories() (in module spacr.qt.screens.settings_model) get_cell_variant() (in module spacr.qt.preferences) get_check_cellpose_models_default_settings() (in module spacr.settings) get_collector() (in module spacr.flowview.trace) get_color_blind_mode() (in module spacr.qt.preferences) get_components() (in module spacr.measure) get_consensus_base() (in module spacr.sequencing) get_console_aware() (in module spacr.qt.ai.settings) get_cuda_version() (in module spacr.utils) get_dashboard_watermark() (in module spacr.qt.preferences) get_db_browser_editable() (in module spacr.qt.preferences) get_db_paths() (in module spacr.utils) get_default_apply_cellpose_model_settings() (in module spacr.settings) get_default_generate_activation_map_settings() (in module spacr.settings) get_default_graph_type() (in module spacr.qt.preferences) get_default_graph_types() (in module spacr.qt.preferences) get_default_test_cellpose_model_settings() (in module spacr.settings) get_dock_mode() (in module spacr.qt.preferences) get_dock_width() (in module spacr.qt.preferences) get_field_fade_enabled() (in module spacr.qt.preferences) get_figure() (spacr.plot.spacrGraph method) get_figure_color_tokens() (in module spacr.qt.preferences) get_figure_colors() (in module spacr.qt.preferences) get_figure_dynamic() (in module spacr.qt.preferences) get_figure_format() (in module spacr.qt.preferences) get_figure_grid_size() (in module spacr.qt.preferences) get_figure_line_colour() (in module spacr.qt.preferences) get_figure_line_token() (in module spacr.qt.preferences) get_figure_live_cache() (in module spacr.qt.preferences) get_figure_png_dpi() (in module spacr.qt.preferences) get_figure_save_mode() (in module spacr.qt.preferences) get_figure_style() (in module spacr.qt.preferences) get_figure_style_default() (in module spacr.qt.preferences) get_figure_style_defaults() (in module spacr.qt.preferences) get_figure_style_per_graph() (in module spacr.qt.preferences) get_figure_text_size() (in module spacr.qt.preferences) get_files_from_dir() (in module spacr.utils) get_folded_panels() (in module spacr.qt.preferences) get_font_scale() (in module spacr.qt.preferences) get_fractal_settings() (in module spacr.qt.preferences) get_gui_scale() (in module spacr.qt.preferences) get_handler() (in module spacr.qt.dnd_handlers) get_hash_inputs() (in module spacr.qt.preferences) get_headroom_mb() (in module spacr.qt.preferences) get_identify_masks_finetune_default_settings() (in module spacr.settings) get_idle_minutes() (in module spacr.qt.preferences) get_image() (spacr.crops.CropSource method) get_interface_font_weight() (in module spacr.qt.preferences) get_issue_prompt_mode() (in module spacr.qt.preferences)

get_key() (in module spacr.qt.ai.keys) get_language() (in module spacr.qt.preferences) get_laptop_mode() (in module spacr.qt.preferences) get_last_source() (in module spacr.qt.prefs) get_layer() (spacr.utils.GradCAMGenerator method) get_log_console_levels() (in module spacr.qt.preferences) get_log_file_levels() (in module spacr.qt.preferences) get_logger() (in module spacr.logging_util) (in module spacr.qt.logging_util) get_many() (spacr.crops.CropSource method) (spacr.crops.MergedCropSource method) get_map_barcodes_default_settings() (in module spacr.settings) get_measure_crop_settings() (in module spacr.settings) get_ml_results_paths() (in module spacr.utils) get_montage_columns() (in module spacr.qt.preferences) get_news_height() (in module spacr.qt.preferences) get_object_counts() (in module spacr.measure) get_object_grid_enabled() (in module spacr.qt.preferences) get_optimum_threshold() (in module spacr.sim) get_pane_extents() (in module spacr.qt.widgets.collapsible_splitter) get_pane_opacity() (in module spacr.qt.preferences) get_paths_from_db() (in module spacr.utils) get_perform_regression_default_settings() (in module spacr.settings) get_performance_level() (in module spacr.qt.preferences) get_performance_logging() (in module spacr.qt.preferences) get_plate() (spacr.io.spacrDataset method) get_plot_data_from_csv_default_settings() (in module spacr.settings) get_popup_backdrop() (in module spacr.qt.preferences) get_preferred_provider() (in module spacr.qt.preferences) get_preload_policy() (in module spacr.qt.preferences) get_preview_scale() (in module spacr.qt.widgets.preview_scale) get_provider() (in module spacr.qt.ai.providers) get_recent_sources() (in module spacr.qt.prefs) get_refresh_news() (in module spacr.qt.preferences) get_response_speed() (in module spacr.qt.ai.settings) get_results() (spacr.plot.spacrGraph method) get_rim_alignment() (in module spacr.qt.preferences) get_rim_lag() (in module spacr.qt.preferences) get_rim_length() (in module spacr.qt.preferences) get_rim_mode() (in module spacr.qt.preferences) get_rim_period() (in module spacr.qt.preferences) get_route_errors_through_ai() (in module spacr.qt.ai.settings) get_runtime_text_scale() (in module spacr.qt.preferences) get_save_workspace() (in module spacr.qt.preferences) get_saved_sound_enabled() (in module spacr.qt.preferences) get_section_layout() (in module spacr.qt.preferences) get_sequencing_paths() (in module spacr.utils) get_setting_animations_enabled() (in module spacr.qt.preferences) get_setting_dependencies() (in module spacr.settings) get_share_diagnostic_logs() (in module spacr.qt.preferences) get_show_alpha() (in module spacr.qt.preferences) get_show_beta() (in module spacr.qt.preferences) get_signal_handler() (in module spacr.qt.logging_util) get_sound_enabled() (in module spacr.qt.preferences) get_sound_event_enabled() (in module spacr.qt.preferences) get_sound_music_file() (in module spacr.qt.preferences) get_sound_theme() (in module spacr.qt.preferences) get_sound_volume() (in module spacr.qt.preferences) get_spacr_mode() (in module spacr.qt.preferences) get_spinner_delay() (in module spacr.qt.preferences) get_split_state() (in module spacr.qt.widgets.console_panel) get_stored_token() (in module spacr.qt.ai.github_auth) get_submodules() (in module spacr.utils) get_system_prompt() (in module spacr.qt.ai.settings) get_theme() (in module spacr.qt.preferences) get_theme_choice() (in module spacr.qt.preferences) get_timelapse_settings() (in module spacr.settings) get_tooltips() (in module spacr.qt.screens.settings_model) get_tooltips_bottom_enabled() (in module spacr.qt.preferences) get_tooltips_box_enabled() (in module spacr.qt.preferences) get_tooltips_enabled() (in module spacr.qt.preferences) get_torch_version() (in module spacr.version) get_train_cellpose_default_settings() (in module spacr.settings) get_train_test_model_settings() (in module spacr.settings) get_value() (spacr.qt.widgets.barcode_regex.BarcodeRegexWidget method) (spacr.qt.widgets.channel_mapping.ChannelMappingWidget method) (spacr.qt.widgets.class_editor.ClassEditorWidget method) (spacr.qt.widgets.database_set.DatabaseSetWidget method) (spacr.qt.widgets.external_mask_inputs.ExternalMaskInputWidget method) (spacr.qt.widgets.file_list.FilePathListWidget method) (spacr.qt.widgets.file_list.PairedFileTableWidget method) (spacr.qt.widgets.row_exclusion.RowExclusionEditor method) get_verbose_logging() (in module spacr.qt.preferences) get_version() (in module spacr.version) get_version_info() (in module spacr.version) get_workspace_copy_limit_mb() (in module spacr.qt.preferences) gh_conda_row() (in module spacr.qt.ai.providers) gini() (in module spacr.figures.distributions) (in module spacr.sim) gini_coefficient() (in module spacr.sim) gini_gene_well() (in module spacr.sim) github_cli() (in module spacr.qt.ai.providers) github_path() (in module spacr.qt.widgets.provider_marks) GitHubCli (class in spacr.qt.ai.providers) give_back() (spacr.qt.widgets.plaque_preview.PlaqueSettingsDialog method) give_it_a_size_grip() (in module spacr.qt.dialogs) glass() (in module spacr.qt.widgets.glass) glass_material() (in module spacr.qt.theme) go_term_enrichment_by_column() (in module spacr.toxo) gpt_path() (in module spacr.qt.widgets.provider_marks) gpu_allocated() (in module spacr.fit_resources) gpu_backend() (spacr.qt.screens.hyperparam.HyperparamPanel method) gpu_is_available() (in module spacr.qt.widgets.fractal_travel) gpu_util() (spacr.qt.widgets.home.SystemPanel static method) gpu_vram() (spacr.qt.widgets.home.SystemPanel static method) GpuBackendError GracefulQuitWatcher (class in spacr.qt.shutdown) GradCAM (class in spacr.utils) GradCAMGenerator (class in spacr.utils) gradient() (spacr.plate_qc.EdgeEffectReport method) GradientStats (class in spacr.plate_qc) graph() (spacr.qt.screens.pipeline_graph.GraphCanvas method) (spacr.qt.screens.pipeline_graph.PipelineGraphScreen method) graph_importance() (in module spacr.plot) graph_menu_items() (spacr.qt.screens.gate_editor.GateEditorScreen method) graph_sequencing_stats() (in module spacr.sequencing) graph_spec() (spacr.qt.widgets.fast_plots.FastPlot method) graph_style_as_dict() (in module spacr.qt.widgets.figure_settings) GraphBuilderPanel (class in spacr.qt.widgets.graph_builder) GraphBuilderScreen (class in spacr.qt.screens.graph_builder) GraphCanvas (class in spacr.qt.screens.pipeline_graph) (class in spacr.qt.widgets.graph_builder) graphics_card() (in module spacr.qt.widgets.setup_slides) GraphLayout (class in spacr.flowview.layout) GraphSpec (class in spacr.qt.widgets.graph_spec) greeting_for() (in module spacr.qt.widgets.setup_slides) grew (spacr.qt.resource_cleanup.Reclaim property) greyed_in() (in module spacr.picture_settings) grid (spacr.qt.widgets.graph_builder.GraphCanvas property) grid() (spacr.hyperparam.SearchSpace method) grid_search() (in module spacr.hyperparam) grid_shape() (in module spacr.image_stitch) grid_shown() (spacr.qt.widgets.fast_plots.FastPlot method) grid_size() (spacr.qt.screens.plate_view.PlateGridWidget method) grid_that_fits() (in module spacr.qt.screens.annotate) GridCell (class in spacr.qt.widgets.figure_grid) grip (spacr.qt.widgets.home.NewsPanel property) grna_agreement() (in module spacr.hits) group_by_fieldset() (in module spacr.model_zoo) group_by_source() (in module spacr.model_zoo) group_count() (spacr.qt.widgets.external_mask_inputs.ExternalMaskInputWidget method) group_feature_class() (in module spacr.utils) group_in() (spacr.settings.BarcodeEntry method) group_label() (spacr.settings.BarcodeEntry method) group_merged_files() (in module spacr.qt.widgets.motility_preview) group_names() (in module spacr.column_groups) (in module spacr.import_plan) group_of() (spacr.qt.widgets.fast_plots.ControlSeparation method) group_sizes() (spacr.qt.widgets.fast_plots.ControlSeparation method) (spacr.qt.widgets.fast_plots.GroupedPlot method) (spacr.qt.widgets.fast_plots.GuideAgreementPlot method) group_tiles() (in module spacr.align) group_variance_share() (in module spacr.merge_tables) grouped_failures() (spacr.errors.RunLedger method) grouped_split() (in module spacr.classifier_evaluation) GroupedPlot (class in spacr.qt.widgets.fast_plots) (class in spacr.qt.widgets.grouped_plot) GroupFit (class in spacr.qt.widgets.dose_response) groups (spacr.gene_measurement_compare.Comparison property) (spacr.qt.widgets.dose_response.DoseResponseSet property) groups() (spacr.qt.widgets.external_mask_inputs.ExternalMaskInputWidget method) (spacr.qt.widgets.grouped_plot.PlotSpec method) grow_to_fit_the_organelle_count() (spacr.qt.screens.settings_model.SettingsWidgets method) guarded_n_jobs() (in module spacr.openmp_guard) guidance() (in module spacr.qt.cpu_modes) (in module spacr.qt.organelle_modes) guide_agreement() (in module spacr.figures.panels) guide_control_threshold() (in module spacr.regression_panels) guide_fraction() (in module spacr.figures.distributions) guide_freedman_lane_test() (in module spacr.guide_permutation) guide_of() (in module spacr.hits) guide_support() (in module spacr.guide_concordance) guide_support_sensitivity() (in module spacr.guide_permutation) guide_support_summary() (in module spacr.trial_metrics) guide_table() (spacr.qt.widgets.annotation_umap_tab.AnnotationUmapTab method) GuideAgreementPlot (class in spacr.qt.widgets.fast_plots) GuideRow (class in spacr.gene_tile) guides_for_coefficient() (in module spacr.cell_montage)

H

hand_over() (in module spacr.cli_make_masks) handle() (spacr.qt.widgets.image_ruler.ImageRuler method) handle_at() (spacr.qt.widgets.gate_editor.GateCanvas method) handle_key() (spacr.qt.screens.annotate.AnnotateScreen method) handles() (spacr.qt.widgets.gate_spec.EllipseGate method) (spacr.qt.widgets.gate_spec.Gate method) (spacr.qt.widgets.gate_spec.PolygonGate method) (spacr.qt.widgets.gate_spec.RectGate method) (spacr.qt.widgets.gate_spec.ThresholdGate method) hardest_surface() (in module spacr.qt.iconset) HardwareProfile (class in spacr.qt.widgets.fractal_travel) has() (spacr.train_compare.Series method) has_axis() (spacr.layers.Spacing method) has_band (spacr.nonparametric_fits.Curve property) has_collisions (spacr.multi_database.MergePlan property) has_csv_column_picker() (in module spacr.qt.screens.settings_model) has_curated_layout() (in module spacr.qt.screens.settings_model) has_curves (spacr.train_compare.TrainingRun property) has_display() (in module spacr.cli_make_masks) has_errors() (spacr.qt.screens.batch.BatchScreen method) has_failures (spacr.report.Report property) has_images_in() (in module spacr.qt.dnd) has_live_figure() (spacr.qt.widgets.figure_queue.FigureQueue method) has_object_opener() (in module spacr.qt.linked_selection) (spacr.qt.linked_selection.LinkedSelection method) has_plate() (spacr.qt.screens.plate_view.PlateGridWidget method) has_registered_defaults() (in module spacr.settings) has_replicates (spacr.qt.widgets.dose_response.DoseResponseResult property) has_section_explainer() (in module spacr.qt.screens.settings_model) has_translation() (in module spacr.qt.i18n) has_tutorial() (in module spacr.qt.tutorials) has_wells (spacr.qt.widgets.outlier_model.OutlierResult property) has_word (spacr.qt.widgets.dna_rain.Column property) has_workspace() (in module spacr.workspace) has_z (spacr.zstack.TStackResult property) hash_file() (in module spacr.run_journal) (in module spacr.workspace) hasHeightForWidth() (spacr.qt.widgets.flow.FlowHost method) (spacr.qt.widgets.flow.FlowLayout method) hashing_enabled() (spacr.run_journal.Run method) have_omero() (in module spacr.omero) haystack (spacr.qt.help_index.HelpEntry property) head() (spacr.qt.mask_engine.MaskHistory method) head_color() (spacr.qt.widgets.dna_rain.DnaRainWidget method) header() (spacr.qt.widgets.section.Section method) headerData() (spacr.qt.screens.convert.PlanTableModel method) (spacr.qt.screens.db_browser.PreviewModel method) (spacr.qt.screens.foreign.ColumnMapModel method) (spacr.qt.screens.image_import.AnswerModel method) (spacr.qt.screens.image_import.ProposalModel method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsModel method) (spacr.qt.widgets.sortable_table.SortableProxyModel method) headers() (in module spacr.columns) (spacr.qt.screens.image_import.ProposalModel method) heading() (spacr.qt.widgets.model_zoo_picker.SourceStrip method) heading_style() (in module spacr.qt.widgets.figure_grid_view) headline (spacr.chaining.StaleNote property) headline() (in module spacr.scorecard) (spacr.qt.widgets.control_chart.ControlChartResult method) (spacr.qt.widgets.dose_response.DoseResponseResult method) (spacr.qt.widgets.dose_response.DoseResponseSet method) (spacr.qt.widgets.outlier_model.OutlierResult method) (spacr.qt.widgets.pca_model.PCAResult method) (spacr.run_compare.CountDiff method) (spacr.run_compare.HitDiff method) (spacr.run_compare.RunComparison method) headroom_is_short() (in module spacr.qt.memory_budget) heavy_steps() (in module spacr.qt.detect_chain) height (spacr.align.Tile property) (spacr.layers.Canvas property) (spacr.plaque.Well property) (spacr.plaque_papers.Region property) heightForWidth() (spacr.qt.widgets.flow.FlowHost method) (spacr.qt.widgets.flow.FlowLayout method) (spacr.qt.widgets.home.AppTile method) (spacr.qt.widgets.toggle.Toggle method) HeightGrip (class in spacr.qt.widgets.height_grip) heights (spacr.ops_layout.WellLayout property) held (spacr.qt.chaining.ChainingBar property) (spacr.run_compare.HitDiff property) held() (in module spacr.frame_handoff) held_out_report() (in module spacr.deep_spacr) held_values() (spacr.qt.screens.profiler.ProfilerScreen method) HeldPin (class in spacr.chaining) help_html() (spacr.qt.widgets.api_help_label.ApiHelpLabel method) HelpEntry (class in spacr.qt.help_index) HelpSearchField (class in spacr.qt.help_search)

hf_uri() (in module spacr.model_zoo) hidden_rows() (spacr.qt.screens.db_browser.DbBrowserScreen method) hide_as_page() (in module spacr.qt.screens.map_barcodes) hide_popup() (spacr.qt.help_search.HelpSearchField method) hide_the_rows_the_grid_speaks_for() (spacr.qt.screens.settings_model.SettingsWidgets method) hide_the_rows_the_mode_leaves_out() (spacr.qt.screens.settings_model.SettingsWidgets method) hide_unused() (in module spacr.figures.style) hideEvent() (spacr.qt.screens.app_screen.AppScreen method) (spacr.qt.screens.classify.LazyFlowViewSection method) (spacr.qt.screens.distributed_jobs.DistributedJobsScreen method) (spacr.qt.widgets.activity_spinner.ActivitySpinner method) (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.availability_panel.AvailabilityPanel method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) (spacr.qt.widgets.dna_rain_settings.DnaRainSettingsPopover method) (spacr.qt.widgets.dna_rain_settings.DnaSettingsButton method) (spacr.qt.widgets.hover_tooltip.HoverTooltip method) (spacr.qt.widgets.setup_card.SetupCard method) high() (spacr.qt.widgets.percentile_pair.PercentilePair method) higher_is_better (spacr.attribution.Curve property) highlight() (spacr.qt.comparison_grid.ComparisonGrid method) (spacr.qt.widgets.timelapse_movie.FilmStrip method) highlight_bin() (spacr.qt.widgets.fast_plots.BinnedPlot method) highlight_ceiling() (in module spacr.qt.space) highlight_key() (spacr.qt.widgets.fast_plots.FastPlot method) highlight_keys() (spacr.qt.widgets.fast_plots.FastPlot method) hint_bar_of() (in module spacr.qt.widgets.hint_bar) hint_for() (in module spacr.regex_infer) HintBar (class in spacr.qt.widgets.hint_bar) Hit (class in spacr.hits) (class in spacr.run_compare) hit_counts() (in module spacr.trial_metrics) hit_heatmap() (in module spacr.sp_stats) hit_investigation_default_settings() (in module spacr.hit_investigation) hit_options() (spacr.qt.screens.control_chart.ControlChartScreen method) hit_positive_rate (spacr.qt.widgets.power_design.DesignSpec property) hit_result (spacr.qt.screens.control_chart.ControlChartScreen property) hit_table() (in module spacr.sp_stats) HitAttributionError HitAttributionResult (class in spacr.hit_attribution) HitChange (class in spacr.run_compare) HitDiff (class in spacr.run_compare) HitInvestigationResult (class in spacr.hit_attribution) HitList (class in spacr.hits) (class in spacr.run_compare) HitListScreen (class in spacr.qt.screens.hit_list) HitRunContext (class in spacr.hit_attribution) hits() (spacr.qt.screens.hit_list.HitListScreen method) (spacr.sp_stats.ArrayedHitResult method) HitScoringError HitsOpener (class in spacr.qt.screens.regression) hold() (in module spacr.frame_handoff) (spacr.qt.widgets.drawer.EdgeDrawer method) hold_the_colour_scheme() (in module spacr.qt.theme) holdout_labels() (spacr.regression_annotation.Prepared method) holdout_report() (in module spacr.active_learning) HoldoutField (class in spacr.scorecard) HoldoutScore (class in spacr.scorecard) HoldoutSet (class in spacr.scorecard) home_bands() (in module spacr.qt.app) home_categories() (in module spacr.qt.app) home_stages() (in module spacr.qt.app) HomePage (class in spacr.qt.widgets.home) homogeneity_stats() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) homogeneity_verdict() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) honoured_parameters() (spacr.model_compare.ModelConfig method) hook_layers() (spacr.utils.GradCAMGenerator method) hopeless (spacr.guide_attribution.Preflight property) hormesis() (in module spacr.qt.widgets.dose_response) HormesisCheck (class in spacr.qt.widgets.dose_response) host_contrast() (in module spacr.infection) host_is_expanded() (spacr.qt.widgets.dock.Dock method) host_of() (in module spacr.qt.screens.activation) host_pages() (in module spacr.qt.screens.map_barcodes) host_rss() (in module spacr.fit_resources) host_window() (spacr.qt.chaining.ChainingBar method) HostPathogenPreviewPanel (class in spacr.qt.widgets.host_pathogen_preview) hover_slot (spacr.qt.screens.annotate.AnnotateScreen property) hovered (spacr.qt.screens.image_scatter.ScatterCanvas property) hovered_row() (spacr.qt.widgets.dock.Dock method) HoverTooltip (class in spacr.qt.widgets.hover_tooltip) how_for() (spacr.merge_tables.MergePolicy method) HTile (class in spacr.qt.widgets.tile) human_bytes() (in module spacr.data_manager) (in module spacr.qt.model_install) human_size() (in module spacr.screen_data) HyperparamPanel (class in spacr.qt.screens.hyperparam)

I

icon() (in module spacr.qt.iconset) icon_cache_dir() (in module spacr.qt.iconset) icon_contrast() (in module spacr.qt.iconset) icon_ink_color() (in module spacr.qt.iconset) id_columns (spacr.settings.BarcodeSet property) identical (spacr.qt.settings_diff.SettingsDiff property) (spacr.run_compare.HitDiff property) identical_masks (spacr.model_compare.ComparisonReport property) identifier_columns (spacr.schema.ObjectTableSchema property) identify_masks_finetune() (in module spacr.spacr_cellpose) identify_series() (spacr.qt.screens.train_compare.TrainCompareScreen method) identity (spacr.qt.secondary_masks.PrimaryMaskSource property) identity_columns_of() (in module spacr.filters) identity_switches() (in module spacr.timeflows_baseline) identity_to_prcf() (in module spacr.resume) ids (spacr.batch.Queue property) ignored_parameters() (spacr.model_compare.ModelConfig method) illegible_colour_warning() (in module spacr.figure_style) illegible_colours() (in module spacr.figure_style) illegible_data_colours() (in module spacr.plot) illumination_qc() (in module spacr.illumination) illumination_settings() (in module spacr.illumination) IlluminationCorrector (class in spacr.illumination) IlluminationError IlluminationField (class in spacr.illumination) IlluminationModel (class in spacr.illumination) image_contrast_failures() (in module spacr.qt.theme) image_contrast_report() (in module spacr.qt.theme) image_display_primaries() (in module spacr.qt.preferences) image_optics_metadata() (in module spacr.point_spread) image_path() (spacr.qt.screens.make_masks.NapariBridgeScreen method) IMAGE_TABS (in module spacr.qt.widgets.plaque_preview) ImageFieldsDropHandler (class in spacr.qt.dnd_handlers) ImageImportDropHandler (class in spacr.qt.dnd_handlers) ImageImportScreen (class in spacr.qt.screens.image_import) ImageInfo (class in spacr.omero) ImageLayer (class in spacr.layers) ImageRuler (class in spacr.qt.widgets.image_ruler) imagery_dir() (in module spacr.qt.space) images() (spacr.qt.widgets.cell_montage_view.CellMontageView method) images_in() (in module spacr.qt.widgets.plaque_preview) images_path() (spacr.qt.screens.foreign.ForeignScreen method) images_under() (in module spacr.qt.widgets.import_workbench) ImageScatterScreen (class in spacr.qt.screens.image_scatter) ImageSet (class in spacr.qt.widgets.preview_controls) ImageSetSampler (class in spacr.qt.widgets.preview_controls) ImageUmapExplorer (class in spacr.qt.widgets.umap_explorer) img_list_to_grid() (in module spacr.measure) implemented_keys() (in module spacr.regression_annotation) import_all_rois() (spacr.qt.screens.make_masks.MakeMasksScreen method) import_container() (in module spacr.omero) import_dataset() (in module spacr.omero) import_example_folder() (in module spacr.import_examples) import_field_rois() (spacr.qt.screens.make_masks.MakeMasksScreen method) import_plate() (in module spacr.omero) import_plates_from_csv() (in module spacr.qt.plate_queue) import_project() (in module spacr.foreign) import_rois() (in module spacr.mask_io) import_variant() (in module spacr.import_examples) importance_method_availability() (in module spacr.surrogate) importance_methods() (spacr.qt.screens.model_explanation.ExplainCvPanel method) ImportedCopyNotReleased importer_owns_table() (in module spacr.resume) importer_recorded_columns() (in module spacr.resume) importer_rows_clause() (in module spacr.resume) importer_written_columns() (in module spacr.resume) ImportPlan (class in spacr.foreign) (class in spacr.image_import) (class in spacr.import_plan) ImportResult (class in spacr.foreign) (class in spacr.image_import) (class in spacr.omero) ImportTestDataChooser (class in spacr.qt.import_demo) ImportVariant (class in spacr.import_examples) ImportWorkbench (class in spacr.qt.widgets.import_workbench) ImportWorkbenchDialog (class in spacr.qt.widgets.import_workbench) ImpossibleMomentsError in_safe_mode() (in module spacr.qt.preferences) inapplicable_settings() (in module spacr.classify) (in module spacr.crop_source) (in module spacr.training_basis) IncomparableBenchmarks index() (spacr.batch.Queue method) (spacr.layers.LayerStack method) (spacr.qt.help_search.HelpSearchField method) index_at() (spacr.qt.screens.image_scatter.ScatterCanvas method) index_of() (spacr.illumination.IlluminationField method) indexed_keys() (spacr.qt.settings_search.SettingsSearchBar method) infected_vs_noninfected() (in module spacr.timelapse) infection_report() (in module spacr.infection) infer_barcode_role() (in module spacr.barcode_search) infer_column_map() (in module spacr.foreign) infer_kind() (in module spacr.qt.widgets.graph_spec) infer_layout() (in module spacr.image_import) infer_optics() (in module spacr.point_spread) infer_plate_format() (in module spacr.plate_qc) infer_regression_layout() (in module spacr.regression_layout) InferredLayout (class in spacr.image_import) InfluencePlot (class in spacr.qt.widgets.fast_plots) InfoLink (class in spacr.qt.widgets.info_link) initial_values() (spacr.qt.widgets.umap_figure_settings.UmapFigureSettings method) initialization_policy() (in module spacr.classification_pixels) initialize_base() (spacr.utils.ResNet method) initiate_counter() (in module spacr.utils) ink_at() (spacr.qt.widgets.setup_card.SetupCard method) inprocess_runner() (in module spacr.batch) InputGroup (class in spacr.external_masks) inputs() (spacr.qt.widgets.formula.ColumnFormula method) InputSoundFilter (class in spacr.qt.sound) insert() (spacr.layers.LayerStack method) insertion_curve() (in module spacr.attribution) insertWidget() (spacr.qt.widgets.collapsible_splitter.CollapsibleSplitter method) InsideFile (class in spacr.image_import) inspect_checkpoint() (in module spacr.model_zoo) inspect_container() (in module spacr.omero) inspect_database() (in module spacr.database_concurrency) inspect_torch() (in module spacr.accelerator) install() (in module spacr.illumination) (in module spacr.model_zoo) (in module spacr.qt.gc_policy) (in module spacr.qt.help_search) (in module spacr.qt.preview_registry) (in module spacr.qt.recipes) (in module spacr.qt.settings_search) (in module spacr.qt.shortcuts) (in module spacr.qt.thread_guard) (in module spacr.roi) (spacr.qt.widgets.cli_setup_panel.CliSetupPanel method) install_align_button() (in module spacr.qt.ops_stitch_demo) install_ambient() (in module spacr.qt.widgets.ambient) install_api_tooltips() (in module spacr.qt.screens.settings_model) install_assay_example_button() (in module spacr.qt.assay_examples) install_backend() (in module spacr.qt.widgets.model_zoo_picker) install_backend_package() (in module spacr.qt.widgets.model_zoo_picker) install_barcode_search() (in module spacr.qt.screens.map_barcodes) install_budget_sweep() (in module spacr.qt.resource_cleanup) install_button_roles() (in module spacr.qt.button_roles) install_chaining() (in module spacr.qt.chaining) install_close_marks() (in module spacr.qt.theme) install_column_text_scale() (in module spacr.qt.live_zoom) install_command() (in module spacr.gpu_reduce) install_context_menu_filter() (in module spacr.qt.widgets.feature_dictionary) install_correction_families() (in module spacr.qt.screens.regression) install_cursor_policy() (in module spacr.qt.widgets.cursor_policy) install_dataset_button() (in module spacr.qt.make_masks_datasets) install_decision() (in module spacr.updater) install_dialog_translation() (in module spacr.qt.i18n) install_dna_rain() (in module spacr.qt.widgets.dna_rain) install_dropzone() (in module spacr.qt.dnd) install_example_data_button() (in module spacr.qt.screens.mask) install_excepthook() (in module spacr.crashreport) install_extras() (in module spacr.qt.screens.regression) install_field_fade() (in module spacr.qt.widgets.field_fade) install_flowview() (in module spacr.qt.screens.classify) install_fold_strip() (in module spacr.qt.screens.map_barcodes) install_folds() (in module spacr.qt.screens.classify) (in module spacr.qt.screens.image_umap) (in module spacr.qt.screens.map_barcodes) (in module spacr.qt.screens.mask) (in module spacr.qt.screens.measure) (in module spacr.qt.screens.regression) install_folds_on() (in module spacr.qt.screens.map_barcodes) install_for() (in module spacr.qt.dnd) install_glass_everywhere() (in module spacr.qt.widgets.glass) install_help_action() (in module spacr.qt.recipes) (in module spacr.qt.widgets.feature_dictionary) install_help_menu() (in module spacr.qt.walkthrough) install_hint_for() (in module spacr.qt.ai.providers) install_hits_tab() (in module spacr.qt.screens.regression) install_link() (spacr.qt.widgets.availability_panel.AvailabilityPanel method) install_live_zoom() (in module spacr.qt.live_zoom) install_make_masks_help() (in module spacr.qt.widgets.make_masks_help) install_methods_for() (in module spacr.qt.ai.providers) install_module_hints() (in module spacr.qt.module_hints) install_offer() (in module spacr.gpu_reduce) install_ops_switch() (in module spacr.qt.screens.mask) install_picture_save() (in module spacr.qt.widgets.picture_export) install_plan() (in module spacr.gpu_reduce) install_plaque_mode() (in module spacr.qt.widgets.plaque_preview) install_preview_scale() (in module spacr.qt.widgets.preview_scale) install_publication_figure() (in module spacr.qt.screens.regression) install_qc_banner() (in module spacr.qt.prerun) install_qt_translations() (in module spacr.qt.i18n) install_recipe() (in module spacr.regression_backends) install_refresh_button() (in module spacr.qt.widgets.preview_refresh) install_requirement_command() (in module spacr.updater) install_run_hook() (in module spacr.qt.resource_cleanup) install_run_id_logging() (in module spacr.runctx) install_scaling_layer() (in module spacr.qt.gui_scale) install_sorting() (in module spacr.qt.widgets.sortable_table) install_starplast() (in module spacr._starplast) install_test_data_button() (in module spacr.qt.make_masks_demo) (in module spacr.qt.widgets.measurements_example) install_the_dialog_filters() (in module spacr.qt.app) install_the_spaceout_fractal() (in module spacr.qt.app) install_tooltip_policy() (in module spacr.qt.tooltip_policy) install_window_hooks() (in module spacr.qt.help_search) (in module spacr.qt.preview_registry) (in module spacr.qt.recipes) (in module spacr.qt.screens.map_barcodes) (in module spacr.qt.settings_search) (in module spacr.qt.walkthrough) (in module spacr.qt.widgets.feature_dictionary) install_word_for() (in module spacr.qt.widgets.availability_panel) installed() (in module spacr.qt.gui_scale) (in module spacr.qt.shortcuts) installed_token() (in module spacr.cancellation) installed_version() (in module spacr.updater) InstallerConsentDialog (class in spacr.qt.install_consent) InstallMethod (class in spacr.qt.ai.providers) InstallOffer (class in spacr.updater) InstallOutcome (class in spacr.qt.ai.cli_install) InstallPlan (class in spacr.qt.ai.cli_install) InstallRecord (class in spacr.install_cleanup) instance() (spacr.qt.widgets.availability_panel.AvailabilityPanel class method) (spacr.qt.widgets.hover_tooltip.HoverTooltip class method) InsufficientDesignError IntegratedGradients (class in spacr.utils) intensity_centre_offset() (in module spacr.object_distances) InteractionSurface (class in spacr.qt.widgets.dose_response) intercept_from_frame() (in module spacr.qt.widgets.cell_montage_view) interior_distance_transform() (in module spacr.object_distances) interpret_kappa() (in module spacr.agreement) interpret_vision_model() (in module spacr.ml) (in module spacr.submodules) interval_started() (in module spacr.qt.timing) invalidate() (spacr.qt.widgets.column_aligned_row.ColumnAlignedRow method) (spacr.qt.widgets.preview_controls.ImageSetSampler method) invalidate_field_fade() (in module spacr.qt.widgets.field_fade) invalidate_tooltip_policy() (in module spacr.qt.tooltip_policy) inventory() (in module spacr.workspace) inventory_text() (in module spacr.workspace) invert() (spacr.qt.widgets.pca_view.FeaturePicker method) invert_for_detection() (in module spacr.qt.mask_engine) invert_image() (in module spacr.utils) invert_intensity() (in module spacr.qt.mask_engine) invert_mask() (in module spacr.qt.mask_engine) invert_normalized() (in module spacr.qt.mask_engine) investigate_hit() (in module spacr.hit_investigation) InvestigateHitInputsDropHandler (class in spacr.qt.dnd_handlers)

InvestigateHitPanel (class in spacr.qt.screens.model_explanation) InvestigateHitScreen (class in spacr.qt.screens.model_explanation) iou_matrix() (in module spacr.scorecard) (in module spacr.timeflows_baseline) is_3d (spacr.umap_search.UmapRecipe property) is_accept_enabled() (spacr.qt.widgets.column_picker.ColumnPickerDialog method) is_active (spacr.selection.Selection property) is_active() (in module spacr.qt.detect_chain) (spacr.qt.screens.map_barcodes.CategoryFoldSet method) (spacr.qt.widgets.collapsible_splitter.FocusCollapse method) is_addition (spacr.updater.PackageChange property) is_ai_streaming() (spacr.qt.widgets.console_panel.ConsolePanel method) is_alive (spacr.qt.annotate_engine.SaveWorker property) is_all_done() (spacr.qt.plate_queue.PlateQueue method) is_ambiguous (spacr.image_import.InsideFile property) is_animating() (spacr.qt.widgets.ambient.AmbientWidget method) is_animation_choice() (in module spacr.qt.widgets.ambient) is_authenticated() (in module spacr.qt.ai.github_auth) is_basic() (in module spacr.organelle_types) is_believed (spacr.image_stitch.Mosaic property) is_binary_response (spacr.regression_qc.RegressionQCContext property) is_binomial (spacr.regression_qc.RegressionQCContext property) is_bounded (spacr.qt.widgets.fractal_mandelbrot.ReferenceOrbit property) is_busy() (spacr.qt.bridge.RunRegistry method) (spacr.qt.job_runner.JobRunner method) (spacr.qt.screens.agreement.AgreementScreen method) (spacr.qt.screens.align.AlignScreen method) (spacr.qt.screens.annotate.AnnotateScreen method) (spacr.qt.screens.app_screen.AppScreen method) (spacr.qt.screens.batch.BatchScreen method) (spacr.qt.screens.control_chart.ControlChartScreen method) (spacr.qt.screens.convert.ConvertScreen method) (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.dose_response.DoseResponseScreen method) (spacr.qt.screens.embeddings.EmbeddingsScreen method) (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) (spacr.qt.screens.feature_explorer.FeatureExplorerScreen method) (spacr.qt.screens.foreign.ForeignScreen method) (spacr.qt.screens.gate_editor.GateEditorScreen method) (spacr.qt.screens.graph_builder.GraphBuilderScreen method) (spacr.qt.screens.hit_list.HitListScreen method) (spacr.qt.screens.image_import.ImageImportScreen method) (spacr.qt.screens.methods_export.MethodsExportScreen method) (spacr.qt.screens.model_compare.ModelCompareScreen method) (spacr.qt.screens.model_zoo.ModelZooScreen method) (spacr.qt.screens.outliers.OutliersScreen method) (spacr.qt.screens.pca.PCAScreen method) (spacr.qt.screens.pipeline_graph.PipelineGraphScreen method) (spacr.qt.screens.plate_view.PlateViewScreen method) (spacr.qt.screens.power.PowerScreen method) (spacr.qt.screens.profiler.ProfilerScreen method) (spacr.qt.screens.project_browser.ProjectBrowserScreen method) (spacr.qt.screens.qc_dashboard.QCDashboardScreen method) (spacr.qt.screens.report.ReportScreen method) (spacr.qt.screens.tabulate.TabulateScreen method) (spacr.qt.screens.train_compare.TrainCompareScreen method) (spacr.qt.screens.trellis.TrellisScreen method) (spacr.qt.widgets.activity_spinner.ActivitySpinner method) (spacr.qt.widgets.cli_setup_panel.CliSetupPanel method) (spacr.qt.widgets.column_picker.ColumnPickerDialog method) (spacr.qt.widgets.figure_queue.FigureQueue method) (spacr.qt.widgets.pca_view.PCAPanel method) (spacr.qt.widgets.row_exclusion.RowExclusionEditor method) is_busy_error() (in module spacr.database_concurrency) is_chosen() (spacr.qt.widgets.provider_marks.ProviderMark method) is_classifier (spacr.regression_qc.RegressionQCContext property) is_close_mark() (in module spacr.qt.theme) is_closed (spacr.layers.Shape property) is_collapsed() (spacr.qt.widgets.collapsible_splitter.CollapsibleSplitter method) (spacr.qt.widgets.collapsible_splitter.Pane method) is_complete (spacr.convert.ConversionResult property) (spacr.errors.RunLedger property) (spacr.foreign.ImportResult property) (spacr.qt.widgets.graph_spec.RenderData property) is_configured() (spacr.qt.ai.providers.ChatProvider method) is_count (spacr.regression_qc.RegressionQCContext property) is_cuda (spacr.accelerator.Accelerator property) is_cuda() (in module spacr.accelerator) is_curated() (in module spacr.curation) is_cv (spacr.train_compare.TrainingRun property) is_database_path() (in module spacr.qt.widgets.file_list) is_degenerate() (spacr.qt.widgets.pca_model.PCAResult method) is_edge() (in module spacr.qt.widgets.plate_layout) is_editable() (spacr.qt.screens.db_browser.PreviewModel method) is_elided() (spacr.qt.widgets.eliding.ElidingLabel method) (spacr.qt.widgets.eliding.ElidingPushButton method) is_empty (spacr.cell_montage.MontagePlan property) (spacr.crop_loader.CropPlan property) (spacr.qt.widgets.formula.FormulaSet property) (spacr.qt.widgets.gate_spec.GateSet property) (spacr.qt.widgets.graph_spec.FacetPanel property) (spacr.qt.widgets.graph_spec.GraphSpec property) (spacr.qt.widgets.pivot_spec.PivotSpec property) (spacr.qt.widgets.trellis_spec.TrellisPanel property) (spacr.selection.DataFilter property) is_empty() (spacr.qt.screens.power.PowerCurveView method) (spacr.qt.widgets.pivot_spec.PivotResult method) is_empty_path() (in module spacr.chaining) is_enabled() (in module spacr.flowview.trace) (spacr.qt.widgets.drawer.EdgeDrawer method) (spacr.qt.widgets.gate_editor.GateTree method) is_env_key() (in module spacr.train_compare) is_error (spacr.batch.Problem property) (spacr.confusion.ConfusionCell property) (spacr.validate.Problem property) is_expanded() (spacr.qt.widgets.collapsible_section.CollapsibleSection method) (spacr.qt.widgets.measurement_scan_panel.WorkflowStep method) (spacr.qt.widgets.section.Section method) is_faceted (spacr.qt.widgets.graph_spec.FacetGrid property) (spacr.qt.widgets.trellis_spec.TrellisSpec property) is_failure (spacr.doctor.Result property) is_faithful (spacr.surrogate.SurrogateResult property) is_fast_plot() (in module spacr.qt.widgets.save_figure_dialog) is_flat() (spacr.attribution.Attribution method) is_fully_loaded() (spacr.qt.screens.db_browser.DbBrowserScreen method) is_fully_open() (spacr.qt.widgets.drawer.EdgeDrawer method) is_gate_enabled() (spacr.qt.widgets.gate_editor.GateCanvas method) is_gene (spacr.control_names.ControlSpec property) is_gpu (spacr.accelerator.Accelerator property) is_gpu() (in module spacr.accelerator) is_headless() (in module spacr.qt.screens.make_masks) is_held() (spacr.qt.widgets.drawer.EdgeDrawer method) is_holding() (spacr.qt.widgets.module_hint_bar.ModuleHintBar method) is_hovered() (spacr.qt.widgets.dock.DockRow method) is_importable() (in module spacr.qt.model_install) is_installed() (in module spacr._starplast) (in module spacr.qt.gc_policy) (spacr.qt.ai.providers.CommandLineTool method) is_legible_on() (in module spacr.figure_style) is_linked (spacr.qt.linked_selection.LinkedView property) is_list_of_lists() (in module spacr.utils) is_literal (spacr.foreign.ColumnMap property) is_live_section_collapsed() (spacr.qt.widgets.figure_grid_view.FigureGridView method) is_loading() (spacr.qt.screens.embeddings.EmbeddingsScreen method) (spacr.qt.widgets.regression_results.RegressionResultsPanel method) is_locked() (spacr.layers.CanvasLink method) is_logged_in() (spacr.qt.ai.providers.ChatProvider method) (spacr.qt.ai.providers.GitHubCli method) is_low_n (spacr.qt.widgets.feature_rank.ClassSummary property) (spacr.qt.widgets.feature_rank.FeatureScore property) (spacr.qt.widgets.trellis_spec.TrellisPanel property) is_measurement() (in module spacr.gene_measurement_sweep) is_merging() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) is_missing() (in module spacr.omero) (in module spacr.qt.widgets.sortable_table) is_move (spacr.updater.PackageChange property) is_multi() (spacr.qt.widgets.column_picker.ColumnPickerButton method) (spacr.qt.widgets.column_picker.ColumnPickerDialog method) is_multiprocessing_process() (in module spacr.utils) is_name_elided() (spacr.qt.widgets.home.AppTile method) (spacr.qt.widgets.tile.HTile method) is_night_theme() (in module spacr.qt.night_themes) is_object_type() (in module spacr.schema) is_on() (spacr.qt.widgets.model_zoo_picker.SourceStrip method) is_one_row_per_cell() (in module spacr.object_roles) is_open() (spacr.qt.widgets.dna_rain_settings.DnaSettingsButton method) (spacr.qt.widgets.drawer.EdgeDrawer method) is_organelle() (in module spacr.object_roles) is_partial (spacr.batch.Job property) is_paused() (spacr.qt.bridge.PauseGate method) is_pinned() (spacr.qt.widgets.availability_panel.AvailabilityPanel method) (spacr.qt.widgets.collapsible_splitter.FocusCollapse method) is_positional_pair() (in module spacr.schema) is_positional_well() (in module spacr.schema) is_present() (in module spacr.host_pathogen_example) (in module spacr.import_examples) (in module spacr.qt.make_masks_datasets) (in module spacr.qt.make_masks_demo) (in module spacr.qt.ops_stitch_demo) (spacr.example_archives.ExampleSet method) (spacr.screen_data.ScreenAsset method) is_prunable() (in module spacr.data_manager) is_quarantined() (in module spacr.qc_quarantine) is_ready() (spacr.measure.FieldTable method) is_removal (spacr.updater.PackageChange property) is_restorable() (spacr.qt.widgets.figure_queue.FigureQueue method) is_reviewed() (in module spacr.curation_queue) is_row_column_pair() (in module spacr.schema) is_running() (spacr.qt.bridge.RunHandle method) (spacr.qt.model_install.CheckpointDownload method) (spacr.qt.model_install.PackageInstall method) (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) (spacr.qt.widgets.measurement_scan_panel.ColumnRegressionPanel method) (spacr.resource_log.ResourceSampler method) is_scanning() (spacr.qt.widgets.import_workbench.ImportWorkbench method) (spacr.qt.widgets.measure_input_table.MeasureInputTable method) is_searching() (spacr.qt.screens.map_barcodes.BarcodeSearchPanel method) is_section_collapsed() (spacr.qt.widgets.figure_grid_view.FigureGridView method) is_section_expanded() (spacr.qt.widgets.folding_summary.FoldingSummaryView method) (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) is_seg_bundle() (in module spacr.qt.mask_engine) is_segmented() (in module spacr.object_roles) is_set (spacr.qt.widgets.gate_canvas.AxisCutoff property) is_shallow() (spacr.qt.widgets.dose_response.DoseResponseResult method) is_shape_not_shift (spacr.qt.widgets.feature_rank.FeatureScore property) is_showing_message() (spacr.qt.widgets.segmentation_views.SegmentationViews method) is_single_point (spacr.hyperparam.SearchSpace property) is_size_like() (spacr.qt.widgets.pca_model.PCAResult method) is_space (spacr.ome_zarr.Axis property) is_spacr_name() (in module spacr.foreign) is_spacr_namespace() (in module spacr.omero) is_spinning() (spacr.qt.widgets.activity_spinner.ActivitySpinner method) is_stale() (in module spacr.artifacts) (spacr.artifacts.Registry method) is_steep() (spacr.qt.widgets.dose_response.DoseResponseResult method) is_streaming() (spacr.qt.widgets.ai_chat_panel.AIChatPanel method) is_stuck_at_its_contents() (in module spacr.qt.dialogs) is_surface() (in module spacr.qt.theme) is_system_prompt_overridden() (in module spacr.qt.ai.settings) is_toxoplasma_gene_id() (in module spacr.gene_tile) is_transport_event() (in module spacr.flowview.feeder) is_two_way (spacr.qt.widgets.trellis_spec.TrellisSpec property) is_valid_drift_direction() (in module spacr.qt.widgets.ambient) is_valid_palette() (in module spacr.qt.widgets.ambient) is_valid_theme() (in module spacr.qt.widgets.ambient) is_verbose() (in module spacr.qt.verbose_logger) is_waiting() (spacr.qt.widgets.activity_spinner.ActivitySpinner method) is_warm() (spacr.qt.widgets.gene_panel.GenePanel method) is_whole() (in module spacr.example_data) is_within_plate_format() (in module spacr.schema) isChecked() (spacr.qt.widgets.ai_toggle_label.AiToggleLabel method) isdir() (in module spacr.qt.path_probe) isotonic_fit() (in module spacr.nonparametric_fits) isotropic() (spacr.layers.Spacing class method) isReadOnly() (spacr.qt.widgets.folding_summary.FoldingSummaryView method) issue_url() (in module spacr.qt.ai.issue_report) IssuePreviewDialog (class in spacr.qt.ai.issue_preview) isTextVisible() (spacr.qt.widgets.eliding.ProgressLine method) item() (spacr.errors.RunLedger method) itemAt() (spacr.qt.widgets.column_aligned_row.ColumnAlignedRow method) (spacr.qt.widgets.flow.FlowLayout method) items() (spacr.qt.plate_queue.PlateQueue method) items_per_second (spacr.benchmark.Measurement property) iter_annotated_reads() (in module spacr.barcode_search) iter_barcode_search() (in module spacr.barcode_search) iter_fastq_reads() (in module spacr.barcode_search) iter_image_files() (in module spacr.qt.folder_metadata) iter_setting_animations() (in module spacr.setting_animations) iter_volumes() (in module spacr.zstack) iteration_budget() (in module spacr.qt.widgets.fractal_mandelbrot)

J

jaccard_index() (in module spacr.utils) jitterplot_by_annotation() (in module spacr.plot) Job (class in spacr.batch) job_command() (in module spacr.batch) JobRunner (class in spacr.qt.job_runner) jobs_with() (spacr.batch.QueueResult method) JobStore (class in spacr.remote_execution) join() (in module spacr.dependent_join) (spacr.curation.TrackCuration method) join_how() (in module spacr.object_roles) join_measurements() (in module spacr.gene_measurement_compare) join_metadata() (in module spacr.hits)

join_selected() (spacr.qt.curation_tool.TrackCurationPanel method) join_the_tables() (spacr.qt.widgets.measurement_compare_dialog.MeasurementCompareDialog method) (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) joinable_tables() (in module spacr.qt.widgets.measurement_scan_panel) JoinFanOut JoinReport (class in spacr.foreign) journal_totals() (in module spacr.run_journal) json_safe() (in module spacr.checkpoint) judge_homogeneity() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) judgement_counts() (in module spacr.suggest) jump_to_the_end() (spacr.qt.widgets.console_panel.ConsolePanel method) just_closed() (spacr.qt.widgets.dna_rain_settings.DnaRainSettingsPopover method)

K

kappa_detail() (in module spacr.agreement) kappa_rows() (spacr.qt.screens.agreement.AgreementScreen method) kappa_table() (spacr.agreement.AgreementReport method) keep_or_revert_dialog() (in module spacr.qt.gui_scale) keep_the_src_openable() (spacr.qt.screens.app_screen.AppScreen method) keeps() (spacr.plaque_papers.TextOptions method) key (spacr.qt.comparison_grid.ComparisonPanel property) key() (spacr.qt.counting_tool.CountingTool method) (spacr.qt.curation_tool.BrushTool method) (spacr.qt.layer_viewer.CanvasTool method) (spacr.qt.roi_tool.RoiPen method) key_at() (spacr.qt.screens.image_scatter.ImageScatterScreen method) key_collisions() (in module spacr.confusion) (spacr.lineage.LineageNode method) key_columns() (in module spacr.filters) key_description (spacr.foreign.JoinReport property) key_for() (in module spacr.frame_handoff) key_for_row() (spacr.qt.widgets.fast_plots.FastPlot method) (spacr.qt.widgets.fast_plots.ResultsTable method) key_object_type() (in module spacr.selection) key_token() (in module spacr.qt.screens.annotate) KeyParseError keyPressEvent() (spacr.qt.app.MainWindow method) (spacr.qt.command_palette.CommandPalette method) (spacr.qt.help_search.HelpSearchField method) (spacr.qt.layer_viewer.LayerCanvas method) (spacr.qt.screens.annotate.AnnotateScreen method) (spacr.qt.screensaver.Screensaver method) (spacr.qt.shortcuts.ShortcutOverlay method) (spacr.qt.widgets.availability_panel.AvailabilityPanel method) (spacr.qt.widgets.dna_rain_settings.DnaRainSettingsPopover method) (spacr.qt.widgets.drawer.EdgeDrawer method) (spacr.qt.widgets.height_grip.HeightGrip method) (spacr.qt.widgets.qc_field_browser.QCFieldBrowser method) keys (spacr.layers.CanvasLink property) (spacr.run_compare.HitList property)

keys() (spacr.confusion.ConfusionCell method) (spacr.lineage.LineageNode method) (spacr.qt.widgets.fold_strip.FoldStrip method) keys_for_tier() (in module spacr.qt.widgets.umap_figure_settings) keys_hidden_by_the_run() (spacr.qt.screens.settings_model.SettingsWidgets method) keys_hidden_by_their_object() (in module spacr.qt.screens.settings_model) keys_hidden_in() (in module spacr.qt.widgets.plaque_preview) keys_in_bin() (spacr.qt.widgets.fast_plots.BinnedPlot method) keys_it_hides() (spacr.qt.settings_search.SettingsSearchBar method) keys_matching() (spacr.qt.screens.settings_model.SettingsWidgets method) keys_whose_object_the_run_lacks() (spacr.qt.screens.settings_model.SettingsWidgets method) kind (spacr.ports.ResolvedPort property) (spacr.qt.roi_tool.RoiPen property) (spacr.qt.widgets.gate_spec.BoxGate property) (spacr.qt.widgets.gate_spec.CompositeGate property) (spacr.qt.widgets.gate_spec.CylinderGate property) (spacr.qt.widgets.gate_spec.EllipseGate property) (spacr.qt.widgets.gate_spec.Gate property) (spacr.qt.widgets.gate_spec.PolygonGate property) (spacr.qt.widgets.gate_spec.PrismGate property) (spacr.qt.widgets.gate_spec.RectGate property) (spacr.qt.widgets.gate_spec.ThresholdGate property) (spacr.qt.widgets.gate_spec.ViewGate property) (spacr.qt.widgets.measurement_compare_dialog.MeasurementCompareDialog property) kind() (spacr.data_manager.ProjectUsage method) kinds (spacr.qt.widgets.graph_builder.GraphCanvas property) kinds() (spacr.qt.widgets.read_view.ReadView method) kinds_for() (spacr.qt.widgets.graph_spec.GraphSpec method) KindUsage (class in spacr.data_manager) known (spacr.gene_facts.GeneFacts property) (spacr.qt.widgets.motility_preview.Calibration property) (spacr.seg_qc.FieldAddress property) known() (in module spacr.qt.path_probe) (spacr.qt.widgets.home.RecentRunsPanel method) known_modules() (in module spacr.ports) known_types() (in module spacr.organelle_types) ks_of() (in module spacr.qt.widgets.feature_rank)

L

label (spacr.data_manager.PruneCandidate property) (spacr.gene_facts.Segment property) (spacr.pipeline_graph.Node property) (spacr.qt.widgets.measurement_scan_panel.AttachedDatabase property) (spacr.qt.widgets.preview_controls.ImageSet property) (spacr.run_compare.RunRef property) (spacr.screen_data.ScreenAsset property) label() (spacr.hyperparam.Trial method) (spacr.qt.widgets.image_ruler.ImageRuler method) (spacr.qt.widgets.trellis_spec.TrellisPanel method) (spacr.sra.RunFile method) (spacr.umap_search.UmapRecipe method) label_at_world() (spacr.layers.LabelsLayer method) label_color() (in module spacr.layers) label_colors() (in module spacr.layers) label_control_condition() (in module spacr.ml) label_for() (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) label_frames() (in module spacr.timeflows_qc) label_index() (spacr.crops.MergedField method) label_palette() (in module spacr.qt.widgets.segmentation_views) label_rounds() (in module spacr.active_learning) label_spans() (in module spacr.timeflows_qc) label_to_hex() (in module spacr.qt.annotate_engine) LabelEdit (class in spacr.curation) labelled() (spacr.regression_annotation.Prepared method) LabelMaskDropHandler (class in spacr.qt.dnd_handlers) LabelMissing labels (spacr.measure_hooks.RegionContext property) (spacr.napari_bridge.MaskHandoff property) (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView property) labels() (spacr.crops.MergedField method) (spacr.layers.LabelsLayer method) (spacr.train_compare.Comparison method) labels_from_viewer() (in module spacr.napari_bridge) LabelsLayer (class in spacr.layers) Language (class in spacr.qt.i18n) language_choices() (in module spacr.qt.i18n) language_resolved_once() (in module spacr.qt.screens.settings_model) laptop_mode_note() (in module spacr.qt.preferences) largest_quarter() (in module spacr.plaque_growth) lasso_reg() (in module spacr.utils) last() (spacr.train_compare.Series method) last_error (spacr.qt.annotate_engine.SaveWorker property) last_gui_beat_at() (in module spacr.qt.timing) last_save_ts (spacr.qt.annotate_engine.SaveWorker property) lateral_fwhm_um() (in module spacr.point_spread) latest() (in module spacr.artifacts) (spacr.artifacts.Registry method) lattice() (in module spacr.qt.resonance) launch() (in module spacr.qt.app) launch_command() (in module spacr.qt.ai.cli_install) launch_starplast() (in module spacr._starplast) launch_updated_app() (in module spacr.updater) Layer (class in spacr.layers) (class in spacr.qt.widgets.mask_comparison) layer (spacr.qt.roi_tool.RoiPen property) layer() (spacr.counting.CountingSession method) layer_keys (spacr.qt.widgets.pivot_spec.PivotResult property) layer_rgb() (in module spacr.qt.widgets.mask_comparison) layer_specs() (in module spacr.napari_bridge) LayerCanvas (class in spacr.qt.layer_viewer) LayerError LayerEvent (class in spacr.layers) LayerListWidget (class in spacr.qt.layer_viewer) layers (spacr.qt.widgets.pivot_spec.PivotSpec property) LayerStack (class in spacr.layers) LayerStackDropHandler (class in spacr.qt.dnd_handlers) LayerViewer (class in spacr.qt.layer_viewer) layout_directories() (in module spacr.chaining) layout_graph() (in module spacr.flowview.layout) layout_matrix() (in module spacr.plate_qc) layout_mode() (spacr.qt.screens.convert.ConvertScreen method) layout_rects() (in module spacr.qt.screens.pipeline_graph) LayoutDropHandler (class in spacr.qt.dnd_handlers) LayoutError LazyCropPNG (class in spacr.io) LazyFlowViewSection (class in spacr.qt.screens.classify) LazyScreenFactory (class in spacr.qt.app_catalog) LeakageError LeakageReport (class in spacr.classifier_evaluation) (class in spacr.regression_annotation) learning_curve() (in module spacr.active_learning) least_confidence() (in module spacr.active_learning) leaveEvent() (spacr.qt.screens.image_scatter.ScatterCanvas method) (spacr.qt.widgets.availability_panel.AvailabilityPanel method) (spacr.qt.widgets.dock.Dock method) (spacr.qt.widgets.dock.DockEdge method) (spacr.qt.widgets.dock.DockRow method) (spacr.qt.widgets.drawer.EdgeDrawer method) (spacr.qt.widgets.height_grip.HeightGrip method) (spacr.qt.widgets.hover_tooltip.HoverTooltip method) leaves() (spacr.pipeline_graph.PipelineGraph method) legacy_channel_names() (in module spacr.crops) legacy_filters() (in module spacr.qt.mask_engine) legacy_map_wells() (in module spacr.schema) legacy_png_view() (in module spacr.crops) legacy_safe_int_convert() (in module spacr.schema) legacy_well_ids() (in module spacr.schema) legend (spacr.qt.widgets.home.HomePage property) legend() (spacr.figures.sheet.Sheet method) legends_from_text() (in module spacr.plaque_papers) legibility() (in module spacr.qt.imagery) (in module spacr.qt.space) legibility_of() (in module spacr.qt.imagery) legible_scrim_floor() (in module spacr.qt.theme) length() (spacr.qt.widgets.image_ruler.ImageRuler method) length_counts (spacr.barcode_search.BarcodeTable property) lengths_differ() (spacr.train_compare.Comparison method) lesson_for() (in module spacr.qt.tutorials) lesson_title() (in module spacr.qt.tutorials) lessThan() (spacr.qt.widgets.sortable_table.SortableProxyModel method) let_the_content_scroll() (in module spacr.qt.dialogs) let_the_user_resize() (in module spacr.qt.widgets.glass) letters_from_row_index() (in module spacr.schema) Level (class in spacr.ome_zarr) level (spacr.qt.widgets.measurement_compare_dialog.MeasurementCompareDialog property) level() (spacr.ome_zarr.OmeZarrImage method) (spacr.qt.settings_search.SettingsSearchBar method) (spacr.qt.widgets.regression_results.RegressionResultsPanel method) level_counts() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) level_for_size() (spacr.ome_zarr.OmeZarrImage method) level_note() (spacr.qt.widgets.fast_plots.FastPlot method) level_source() (in module spacr.resource_log) LevelSetFilter (class in spacr.logging_util) leverage_from_design() (in module spacr.regression_qc) library_depth() (in module spacr.sequencing_qc) library_dir() (in module spacr.gate_library) lift (spacr.regression_annotation.FitReport property) lightness() (in module spacr.qt.theme) likely_folders() (in module spacr.qt.ai.cli_install) limits() (spacr.qt.widgets.gate_canvas.AxisCutoff method) line() (spacr.run_recommendations.Recommendation method) line_colour() (spacr.qt.widgets.fast_plots.FastPlot method) line_colour_reason() (spacr.qt.widgets.fast_plots.FastPlot method) line_items() (spacr.qt.widgets.fast_plots.FastPlot method) line_reason() (spacr.qt.widgets.fast_plots.FastPlot method) lineage_frame() (in module spacr.lineage) LineageDropHandler (class in spacr.qt.dnd_handlers) LineageError LineageNode (class in spacr.lineage) LineageScreen (class in spacr.qt.screens.lineage) linear_rgb() (in module spacr.qt.imagery) link (spacr.qt.linked_selection.LinkedView property) link() (spacr.qt.screens.image_import.ImageImportScreen method) link_by_iou() (in module spacr.timelapse) link_by_timeflows() (in module spacr.timeflows_model) link_frames() (in module spacr.timeflows_baseline) link_selection() (spacr.qt.linked_selection.LinkedView method) link_to() (spacr.qt.widgets.zoom_view.ZoomableImageView method) link_tracks() (in module spacr.qt.widgets.timelapse_preview) linked_points() (spacr.qt.widgets.umap_explorer.ImageUmapExplorer method) linked_selection() (in module spacr.qt.linked_selection) linked_visible() (spacr.qt.linked_selection.LinkedView method) LinkedSelection (class in spacr.qt.linked_selection) LinkedView (class in spacr.qt.linked_selection) list() (spacr.remote_execution.JobStore method) (spacr.remote_execution.ProfileStore method) list_images() (in module spacr.qt.mask_engine) list_methods() (in module spacr.attribution) list_providers() (in module spacr.qt.ai.providers) list_quarantined() (in module spacr.qc_quarantine) list_recipes() (in module spacr.qt.recipes) list_shape_for() (in module spacr.qt.screens.settings_model) list_spacr_annotations() (in module spacr.omero) list_strategies() (in module spacr.gate_library) listed() (spacr.qt.widgets.mask_comparison.MaskComparisonDialog method) listed_files() (in module spacr.qt.make_masks_demo) (in module spacr.qt.ops_stitch_demo) lit_phases() (spacr.qt.widgets.loading_screen.LoadingScreen method) literal_factor (spacr.foreign.ColumnMap property) live_figure_allowance() (in module spacr.qt.preferences) live_figure_cap() (spacr.qt.widgets.figure_queue.FigureQueue method) live_figure_count() (spacr.qt.widgets.figure_queue.FigureQueue method) live_figure_queues() (in module spacr.qt.widgets.figure_queue) live_keys() (in module spacr.qt.widgets.umap_figure_settings) live_run_count() (spacr.qt.screens.app_screen.AppScreen method)

live_tile_keys() (spacr.qt.widgets.figure_grid_view.FigureGridView method) live_tiles_from_panels() (in module spacr.qt.widgets.figure_grid_view) live_values() (spacr.qt.widgets.umap_explorer.UmapDisplaySettings method) (spacr.qt.widgets.umap_figure_settings.UmapFigureSettings method) LivePreviewContract (class in spacr.qt.widgets.preview_contract) LivePreviewPanel (class in spacr.qt.widgets.live_preview) LiveSettingsDialog (class in spacr.qt.widgets.live_preview) LiveZoomFilter (class in spacr.qt.live_zoom) load() (in module spacr.gate_library) (in module spacr.qt.widgets.cell_montage_view) (in module spacr.workspace) (spacr.illumination.IlluminationModel class method) (spacr.qt.curation_tool.TrackCurationPanel method) (spacr.qt.plate_queue.PlateQueue method) (spacr.qt.screens.lineage.LineageScreen method) (spacr.qt.widgets.data_filter_panel.DataFilterPanel method) (spacr.qt.widgets.gate_spec.GateSet class method) (spacr.qt.widgets.regression_results.RegressionResultsPanel method) (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) (spacr.roi.RoiSet class method) (spacr.volcano_style.VolcanoStyle class method) load_activation_data() (in module spacr.hyperparam) load_align_test_data() (in module spacr.qt.ops_stitch_demo) load_analysis() (in module spacr.qt.resonance) load_annotations() (in module spacr.agreement) load_array() (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) load_array_async() (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) load_barcode_table() (in module spacr.barcode_search) load_barcode_tables() (in module spacr.barcode_search) load_catalogue_file() (in module spacr.model_zoo) load_cellpose_model() (in module spacr.qt.screens.make_masks) load_coefficients() (spacr.qt.screens.profiler.ProfilerScreen method) load_column_map() (in module spacr.foreign) load_count_table() (in module spacr.sequencing_qc) load_crop_image() (in module spacr.qt.annotate_engine) load_crops() (in module spacr.crop_loader) (spacr.qt.screens.embeddings.EmbeddingsScreen method) load_csv() (spacr.pipeline_v2.FilenameMapper class method) load_display_image() (in module spacr.qt.widgets.plaque_preview) load_draft_counts() (in module spacr.curation_queue) load_evaluation_bundle() (in module spacr.classifier_evaluation) load_fields() (in module spacr.model_compare) load_filters() (spacr.qt.screens.gate_editor.GateEditorScreen method) load_folder() (spacr.qt.screens.hit_list.HitListScreen method) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) load_folder_async() (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) load_frame() (spacr.counting.CountingSession method) load_gates() (spacr.qt.screens.gate_editor.GateEditorScreen method) load_gene_metadata() (in module spacr.hits) load_graph_style() (in module spacr.qt.widgets.figure_settings) load_handoff() (in module spacr.napari_bridge) load_holdout() (in module spacr.scorecard) load_illumination_model() (in module spacr.illumination) load_image() (in module spacr.utils) (spacr.io.NoClassDataset method) (spacr.io.spacrDataset method) (spacr.qt.widgets.live_preview.LivePreviewPanel method) load_image_and_mask() (in module spacr.qt.mask_engine) load_image_paths() (in module spacr.utils) load_images_from_paths() (in module spacr.io) load_import_test_data() (in module spacr.qt.import_demo) load_label_stack() (in module spacr.timeflows_qc) load_mapping() (spacr.qt.screens.foreign.ForeignScreen method) load_mask() (in module spacr.mask_io) load_masks() (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) load_masks_async() (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) load_merged_array() (in module spacr.qt.widgets.measure_preview) load_model_artifact() (in module spacr.torch_artifacts) load_montage_objects() (in module spacr.cell_montage) load_object() (in module spacr.plugins) load_overlay_style() (in module spacr.qt.widgets.plaque_preview) load_page() (in module spacr.crop_loader) load_path() (spacr.qt.screens.control_chart.ControlChartScreen method) (spacr.qt.screens.dose_response.DoseResponseScreen method) (spacr.qt.screens.feature_explorer.FeatureExplorerScreen method) (spacr.qt.screens.gate_editor.GateEditorScreen method) (spacr.qt.screens.graph_builder.GraphBuilderScreen method) (spacr.qt.screens.outliers.OutliersScreen method) (spacr.qt.screens.pca.PCAScreen method) (spacr.qt.screens.tabulate.TabulateScreen method) (spacr.qt.screens.trellis.TrellisScreen method) load_paths() (spacr.qt.screens.gate_editor.GateEditorScreen method) load_plan() (in module spacr.image_import) (spacr.qt.screens.image_import.ImageImportScreen method) load_plate_frame() (in module spacr.plate_qc) load_preview_image() (in module spacr.qt.widgets.live_preview) load_preview_mip() (in module spacr.qt.widgets.live_preview) load_probabilities() (in module spacr.curation_queue) load_project() (spacr.qt.screens.pipeline_graph.PipelineGraphScreen method) (spacr.qt.screens.run_compare.RunCompareScreen method) load_psf() (in module spacr.point_spread) load_qc_field() (in module spacr.qt.widgets.qc_field_browser) load_queue() (in module spacr.batch) load_queue_from() (spacr.qt.screens.batch.BatchScreen method) load_recipe() (in module spacr.qt.recipes) load_regression_input_pairs() (in module spacr.ml) load_results() (in module spacr.hits) load_run() (in module spacr.train_compare) load_run_from_disk() (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) load_run_settings() (in module spacr.run_journal) load_scatter_frame() (in module spacr.qt.screens.image_scatter) load_search_data() (in module spacr.hyperparam) load_seg_bundle() (in module spacr.qt.mask_engine) load_segmentation_illumination_resume() (in module spacr.illumination) load_sequence() (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) load_sequence_async() (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) load_settings() (in module spacr.utils) load_settings_file() (in module spacr.cli) load_source_async() (spacr.qt.widgets.host_pathogen_preview.HostPathogenPreviewPanel method) (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) load_source_payload() (in module spacr.qt.widgets.live_preview) load_style() (in module spacr.qt.widgets.fast_plots) load_table() (spacr.qt.screens.image_scatter.ImageScatterScreen method) load_template() (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) load_test_data() (in module spacr.qt.widgets.measurements_example) load_the_annotate_example() (spacr.qt.screens.app_screen.AppScreen method) load_the_assay_example() (in module spacr.qt.assay_examples) load_the_example_images() (in module spacr.qt.screens.mask) (spacr.qt.screens.app_screen.AppScreen method) load_the_example_screen() (spacr.qt.screens.app_screen.AppScreen method) load_the_measure_example() (spacr.qt.screens.app_screen.AppScreen method) load_the_ops_example() (spacr.qt.screens.app_screen.AppScreen method) load_the_screen_data() (spacr.qt.screens.app_screen.AppScreen method) load_the_sequencing_example() (spacr.qt.screens.app_screen.AppScreen method) load_the_test_data() (in module spacr.qt.make_masks_demo) (in module spacr.qt.ops_stitch_demo) load_this_run() (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) load_widget_qss_registrars() (in module spacr.qt.theme) loaded_rows() (spacr.qt.screens.db_browser.DbBrowserScreen method) loaded_run() (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) loaded_run_folder() (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) loaded_run_name() (spacr.qt.widgets.cell_montage_view.CellMontageView method) loader_policy() (in module spacr.classification_pixels) loadings_frame() (spacr.qt.widgets.pca_model.PCAResult method) LoadingScreen (class in spacr.qt.widgets.loading_screen) local_direction_search() (in module spacr.hyperparam) local_docstring() (in module spacr.qt.help_search) local_fdr() (in module spacr.multiple_testing) local_fdr_values() (spacr.qt.widgets.fast_plots.VolcanoPlot method) local_maxima() (in module spacr.object_distances) localizations_present() (in module spacr.volcano_style) locate() (in module spacr.qt.ai.cli_install) location (spacr.ports.ResolvedPort property) lock() (spacr.layers.CanvasLink method) lock_all() (spacr.qt.comparison_grid.ComparisonGrid method) lock_analysis() (in module spacr.run_journal) lock_folded_to_bottom() (in module spacr.qt.widgets.collapsible_splitter) loewe_surface() (in module spacr.qt.widgets.dose_response) log (spacr.runctx.RunContext property) log_axes() (spacr.qt.widgets.fast_plots.FastPlot method) log_bundle_dir() (in module spacr.qt.ai.issue_report) log_button_press() (in module spacr.qt.verbose_logger) log_call() (in module spacr.qt.verbose_logger) log_dir() (in module spacr.logging_util) (in module spacr.qt.logging_util) (in module spacr.qt.verbose_logger) log_function_call() (in module spacr.logger) log_path() (in module spacr.logging_util) (in module spacr.qt.logging_util) log_path_for() (in module spacr.curation) log_reason() (spacr.qt.widgets.fast_plots.FastPlot method) log_tail() (in module spacr.qt.ai.issue_report) log_text() (spacr.qt.screens.batch.BatchScreen method) logical_size() (in module spacr.qt.hidpi) logs() (spacr.remote_execution.RemoteJobManager method) long_frame() (spacr.qt.widgets.pivot_builder.PivotPanel method) long_to_wide_regression_data() (in module spacr.regression_layout) looks_laid_out() (in module spacr.chaining) looks_like_project() (in module spacr.projects) loudness_lufs() (in module spacr.qt.sound_synth) low() (spacr.qt.widgets.percentile_pair.PercentilePair method) low_n_cells() (spacr.qt.widgets.pivot_spec.PivotResult method) low_n_panels() (spacr.qt.widgets.trellis_spec.Trellis method) lower_layer() (spacr.layers.LayerStack method) luminance_map() (in module spacr.qt.imagery)

M

Macro (class in spacr.macro) macro_path() (in module spacr.macro) MacroError macros() (in module spacr.macro) macros_dir() (in module spacr.macro) MacroStep (class in spacr.macro) mad() (in module spacr.sp_stats) magic_wand() (in module spacr.qt.mask_engine) (in module spacr.qt.wand_rescue) magnitude (spacr.plate_qc.EdgeEffectReport property) main() (in module spacr.cli) (in module spacr.cli_database) (in module spacr.cli_download) (in module spacr.cli_leakage) (in module spacr.cli_make_masks) (in module spacr.cli_plugins) (in module spacr.cli_remote) (in module spacr.cli_repro) (in module spacr.cli_workspace) (in module spacr.crashreport) (in module spacr.doctor) (in module spacr.host_pathogen_example) (in module spacr.install_profile) (in module spacr.qt.safespacr) (in module spacr.qt.spaceout) (in module spacr.qt.synthetic) (in module spacr.sweep_child) (in module spacr.timeflows_model) (in module spacr.timeflows_qc) main.record_validation() (in module spacr.timeflows_model) MainWindow (class in spacr.qt.app) make_class_balance_sampler() (in module spacr.io) make_control_chart_screen() (in module spacr.qt.screens.control_chart) make_cv_folds() (in module spacr.io) make_data_manager_screen() (in module spacr.qt.screens.data_manager) make_dialog() (spacr.qt.widgets.column_picker.ColumnPickerButton method) make_dose_response_screen() (in module spacr.qt.screens.dose_response) make_embeddings_screen() (in module spacr.qt.screens.embeddings) make_experiment_design_screen() (in module spacr.qt.screens.experiment_design) make_feature_explorer_screen() (in module spacr.qt.screens.feature_explorer) make_foldable() (in module spacr.qt.widgets.foldable) make_frameless() (in module spacr.qt.widgets.glass) make_gate_editor_screen() (in module spacr.qt.screens.gate_editor) make_graph_builder_screen() (in module spacr.qt.screens.graph_builder) make_hit_list_screen() (in module spacr.qt.screens.hit_list) make_home_page() (in module spacr.qt.app) make_image_scatter_screen() (in module spacr.qt.screens.image_scatter) make_investigate_hit_screen() (in module spacr.qt.screens.model_explanation) make_layer_viewer_screen() (in module spacr.qt.layer_viewer) make_masks_example_folder() (in module spacr.qt.make_masks_demo) make_methods_export_screen() (in module spacr.qt.screens.methods_export) make_model_artifact() (in module spacr.torch_artifacts) make_model_explanation_screen() (in module spacr.qt.screens.model_explanation) make_outliers_screen() (in module spacr.qt.screens.outliers) make_pca_screen() (in module spacr.qt.screens.pca) make_pipeline_graph_screen() (in module spacr.qt.screens.pipeline_graph) make_power_screen() (in module spacr.qt.screens.power) make_profiler_screen() (in module spacr.qt.screens.profiler) make_project_browser_screen() (in module spacr.qt.screens.project_browser) make_qc_dashboard_screen() (in module spacr.qt.screens.qc_dashboard) make_reducer() (in module spacr.gpu_reduce) make_screen() (in module spacr.qt.widgets.feature_dictionary) make_selector() (spacr.qt.widgets.segmentation_views.SegmentationViews method) make_stream_thread() (in module spacr.qt.ai.worker) make_tabulate_screen() (in module spacr.qt.screens.tabulate) make_the_example_paths_absolute() (in module spacr.example_archives) make_the_window_resizable() (in module spacr.qt.dialogs) make_thread() (in module spacr.qt.bridge) make_thumbnail() (in module spacr.flowview.thumbs) make_transparent() (in module spacr.qt.theme) make_trellis_screen() (in module spacr.qt.screens.trellis) make_validation_holdout() (in module spacr.io) MakeMasksDropHandler (class in spacr.qt.dnd_handlers) MakeMasksScreen (class in spacr.qt.screens.make_masks) MalformedPlateError ManagerStartError manifest_rows() (in module spacr.import_examples) MANIFEST_SCHEMA_VERSION (in module spacr.run_journal) ManuscriptDraft (class in spacr.qt.ai.manuscript) map() (spacr.layers.Colormap method) map_at() (spacr.qt.screens.foreign.ColumnMapModel method) map_condition() (in module spacr.utils) map_sequences_to_names() (in module spacr.sequencing) map_settings_paths() (in module spacr.remote_execution) MapBarcodesDropHandler (class in spacr.qt.dnd_handlers) mapped() (in module spacr.qt.shortcuts) Mapping (class in spacr.convert) mapping() (spacr.qt.screens.image_import.AnswerModel method) mapping_row_count() (spacr.qt.screens.foreign.ForeignScreen method) mapping_to_row() (in module spacr.qt.ingest_preview) maps() (spacr.qt.screens.foreign.ColumnMapModel method) margin() (in module spacr.active_learning) mark() (in module spacr.qt.timing) (spacr.checkpoint.CheckpointStore method) (spacr.qt.widgets.fast_plots.GroupedPlot method) mark_advice() (in module spacr.qt.widgets.fast_plots) mark_answered() (in module spacr.qt.setup_screen) mark_as_a_sheet_target() (in module spacr.qt.theme) mark_changed (spacr.qt.widgets.fast_plots.GroupedPlot attribute) mark_completed() (spacr.illumination.SegmentationIlluminationSession method) mark_crop_output_folder() (in module spacr.io) mark_fold_sources() (in module spacr.qt.screens.mask) (in module spacr.qt.screens.measure) mark_folded_categories() (in module spacr.qt.widgets.fold_strip) mark_folded_sections() (in module spacr.qt.widgets.fold_strip) mark_for() (in module spacr.graph_types) (in module spacr.qt.widgets.provider_marks) mark_note() (spacr.qt.widgets.fast_plots.GroupedPlot method) mark_run() (spacr.qt.widgets.figure_queue.FigureQueue method) mark_seen() (in module spacr.qt.walkthrough) mark_state() (in module spacr.curation_queue) mark_surface() (in module spacr.qt.theme) mark_tab_bar() (in module spacr.qt.theme) mark_to_start_on() (in module spacr.graph_types) mark_tour_seen() (in module spacr.qt.first_run) marks (spacr.figures.stats.Comparison property) mask() (in module spacr.localisation) (spacr.layers.ShapesLayer method) (spacr.qt.widgets.gate_spec.BoxGate method) (spacr.qt.widgets.gate_spec.CompositeGate method) (spacr.qt.widgets.gate_spec.CylinderGate method) (spacr.qt.widgets.gate_spec.EllipseGate method) (spacr.qt.widgets.gate_spec.Gate method) (spacr.qt.widgets.gate_spec.GateClause method) (spacr.qt.widgets.gate_spec.GateSet method) (spacr.qt.widgets.gate_spec.PolygonGate method) (spacr.qt.widgets.gate_spec.PrismGate method) (spacr.qt.widgets.gate_spec.RectGate method) (spacr.qt.widgets.gate_spec.ThresholdGate method) (spacr.qt.widgets.gate_spec.ViewGate method) (spacr.selection.CategoryFilter method) (spacr.selection.DataFilter method) (spacr.selection.RangeFilter method) mask_destination() (spacr.curation_queue.QueueLayout method) mask_dim() (spacr.crops.MergedField method) mask_dims() (spacr.measure.FieldTable method) mask_dims_from_settings() (in module spacr.crops) mask_folders() (spacr.qt.screens.foreign.ForeignScreen method) mask_for() (spacr.selection.Selection method) mask_object_count() (in module spacr.utils) mask_of() (in module spacr.regex_infer) mask_path() (spacr.qt.screens.make_masks.NapariBridgeScreen method) mask_plane() (spacr.crops.MergedField method) mask_plane_for() (in module spacr.crop_source) mask_planes() (in module spacr.intensity_rescale) mask_role_of() (in module spacr.measure) mask_save_path() (in module spacr.qt.mask_engine) mask_settings() (spacr.qt.screens.make_masks.MakeMasksScreen method) mask_stack_mtime() (in module spacr.seg_qc) mask_whole_folder() (spacr.qt.screens.make_masks.MakeMasksScreen method) mask_with() (spacr.qt.widgets.gate_spec.CompositeGate method) MaskComparisonDialog (class in spacr.qt.widgets.mask_comparison) MaskConfig (class in spacr.api) MaskCuration (class in spacr.curation) MaskDataset (class in spacr.qt.make_masks_datasets) MaskDropHandler (class in spacr.qt.dnd_handlers) MaskFidelityError MaskHandoff (class in spacr.napari_bridge) MaskHistory (class in spacr.qt.mask_engine) MaskMapping (class in spacr.foreign) MaskMatch (class in spacr.external_masks) MaskPlaneMissing masks_dataset_target() (in module spacr.qt.widgets.model_share) masks_folder() (in module spacr.qt.mask_engine) masks_to_coco() (in module spacr.mask_io) masks_to_geojson() (in module spacr.mask_io) masks_to_roiset() (in module spacr.mask_io) master_array() (in module spacr.qt.imagery) master_dirs() (in module spacr.qt.imagery) master_path() (in module spacr.qt.imagery) Match (class in spacr.scorecard) match_cells() (in module spacr.ops_merge) match_keys() (in module spacr.selection) match_masks() (in module spacr.utils) match_objects() (in module spacr.model_compare) (in module spacr.scorecard) match_rate (spacr.foreign.JoinReport property) match_vertices() (in module spacr.timeflows_baseline) matcher() (spacr.barcode_search.BarcodeTable method) matches() (in module spacr.control_names) matches_path() (in module spacr.crop_source) material_settings() (in module spacr.artifacts) maths_for() (in module spacr.qt.screens.settings_model) matmul() (in module spacr.ops_accel) maturity() (spacr.qt.widgets.section.Section method) maturity_is_visible() (in module spacr.qt.preferences) max_background_luma() (in module spacr.qt.theme) max_fields() (spacr.qt.widgets.timelapse_movie.TimelapseMoviePanel method) max_images() (spacr.qt.widgets.live_preview.LivePreviewPanel method) max_lambda() (in module spacr.group_lasso) max_length (spacr.qt.widgets.dna_rain.DnaRainEngine property) max_reads() (spacr.qt.widgets.sra_picker.SraPicker method) max_residual (spacr.align.AlignPlan property) maxima_distances() (in module spacr.object_distances) maxima_propagate_instances() (in module spacr.qt.mask_engine) maximum() (spacr.qt.widgets.eliding.ProgressLine method) maximum_filter() (in module spacr.ops_accel) maybe_show() (in module spacr.qt.walkthrough) maybe_show_installer_consent() (in module spacr.qt.install_consent) maybe_show_tour() (in module spacr.qt.first_run) maybe_start() (in module spacr.qt.startup_benchmark) mcfadden_note() (in module spacr.ml) mean_ari (spacr.model_compare.ComparisonReport property) mean_matched_fraction (spacr.model_compare.ComparisonReport property) mean_matched_iou (spacr.model_compare.ComparisonReport property) mean_objects (spacr.model_zoo.BenchmarkResult property) measure() (in module spacr.qt.laptop_mode) (spacr.qt.mask_engine.ObjectLookup method) measure_border_object_removal() (in module spacr.setting_animations) measure_crop() (in module spacr.measure) measure_example_destination() (spacr.qt.screens.app_screen.AppScreen method) measure_figure_folder() (in module spacr.plaque_papers) measure_from_field_table() (in module spacr.measure) measure_plaques_from_papers() (in module spacr.plaque_papers) measure_region() (in module spacr.plaque_papers) measure_rows_clause() (in module spacr.resume) measure_screen() (in module spacr.classifier_quality) measure_test_mode() (in module spacr.utils) measure_visible_change() (in module spacr.setting_animations) MeasureConfig (class in spacr.api) measured_fill() (spacr.qt.widgets.animation_zoom.ZoomedAnimation method) measured_psf() (in module spacr.point_spread) MeasureDropHandler (class in spacr.qt.dnd_handlers) MeasureInputsScreen (class in spacr.qt.screens.measure_inputs) MeasureInputTable (class in spacr.qt.widgets.measure_input_table) Measurement (class in spacr.benchmark) measurement (spacr.qt.widgets.measurement_compare_dialog.MeasurementCompareDialog property) measurement_columns() (in module spacr.gene_measurement_sweep) measurement_pairs() (in module spacr.omero) measurement_psf_record() (in module spacr.psf_measurement) measurement_psf_signature() (in module spacr.psf_measurement) measurement_resume_settings() (in module spacr.psf_measurement) MeasurementCompareDialog (class in spacr.qt.widgets.measurement_compare_dialog) MeasurementComparePanel (class in spacr.qt.widgets.measurement_compare_dialog) MeasurementEffect (class in spacr.measurement_scan) MeasurementHookError measurements_are_joined() (in module spacr.gene_measurement_compare) measurements_database() (in module spacr.qt.screens.image_umap) measurements_path() (spacr.qt.screens.foreign.ForeignScreen method) MeasurementScanPanel (class in spacr.qt.widgets.measurement_scan_panel) MeasurementsDropHandler (class in spacr.qt.dnd_handlers) MeasurementUnitsMismatch MeasurePreviewPanel (class in spacr.qt.widgets.measure_preview) median_absolute_deviation() (in module spacr.qt.widgets.outlier_model) median_equivalent_diameter() (in module spacr.curation_queue) median_polish() (in module spacr.sp_stats) MedianPolish (class in spacr.sp_stats) mend_matplotlib_icons() (in module spacr.qt.gui_scale) menu() (in module spacr.regression_annotation) menu_bar_background() (in module spacr.qt.theme) menu_entries() (in module spacr.qt.widgets.fast_plots) menu_groups() (in module spacr.qt.widgets.fast_plots) menu_reading_order() (in module spacr.qt.widgets.fast_plots) menu_settings() (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) merge() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) merge_across_databases() (in module spacr.qt.widgets.measurement_scan_panel) merge_annotation_file() (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) merge_cv_predictions() (in module spacr.predictions) merge_dataframes() (in module spacr.utils) merge_evidence() (in module spacr.qt.widgets.measurement_scan_panel) merge_halves() (in module spacr.object_classifier) merge_ml_predictions() (in module spacr.predictions) merge_plate_databases() (in module spacr.plate_measurements) merge_prediction_results() (in module spacr.predictions) merge_predictions_into_db() (in module spacr.deep_spacr) merge_regression_res_with_metadata() (in module spacr.utils) merge_releases() (spacr.qt.widgets.home.NewsPanel static method) merge_report() (in module spacr.qt.widgets.measurement_scan_panel) merge_split_filter_masks() (in module spacr.object) merge_split_filter_masks._progress() (in module spacr.object) merge_split_filter_masks._run_one() (in module spacr.object) merge_split_objects() (in module spacr.utils) merge_summary() (in module spacr.qt.widgets.measurement_scan_panel) merge_tables() (in module spacr.merge_tables) merge_touching_objects() (in module spacr.utils) mergeable_tables() (in module spacr.merge_tables) MergeCancelled MergeCardinalityError merged_column() (spacr.plate_measurements.TableMerge method) merged_frame_path() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) MergedCropSource (class in spacr.crops) MergeDecision (class in spacr.multi_database) MergedField (class in spacr.crops) MergedFileMissing MergeError MergePlan (class in spacr.multi_database) MergePolicy (class in spacr.merge_tables) MergeRefused MergeReport (class in spacr.predictions) message (spacr.schema.ColumnCollision property) message_text() (spacr.qt.widgets.segmentation_views.SegmentationViews method) meta (spacr.checkpoint.CheckpointStore property) metadata() (spacr.macro.Macro method) metadata_files() (spacr.qt.screens.hit_list.HitListScreen method) metadata_type() (spacr.qt.screens.foreign.ForeignScreen method) metadata_values() (in module spacr.qt.annotate_engine) MetadataColumnDialog (class in spacr.qt.widgets.metadata_mapper) MetadataDecision (class in spacr.metadata_resolution) MetadataRecord (class in spacr.qt.regex_detect) MetadataRequest (class in spacr.metadata_resolution) MetadataResolutionRequired MetadataTableDialog (class in spacr.qt.widgets.metadata_table) MetadataTablePanel (class in spacr.qt.widgets.metadata_table) method_agreement() (in module spacr.attribution) method_applicability() (in module spacr.attribution) method_choices() (in module spacr.multiple_testing) method_guidance() (in module spacr.organelle_types) method_label() (in module spacr.multiple_testing) (spacr.qt.widgets.outlier_model.OutlierResult method) MethodParams (class in spacr.qt.organelle_modes) METHODS (in module spacr.batch_correction) methods_by_family() (in module spacr.attribution) methods_in() (in module spacr.nonparametric_fits) MethodsExportScreen (class in spacr.qt.screens.methods_export) MethodSpec (class in spacr.attribution) (class in spacr.multiple_testing) MethodsSourcesDropHandler (class in spacr.qt.dnd_handlers) metric_direction() (in module spacr.train_compare) metric_rows() (spacr.qt.screens.model_compare.ModelCompareScreen method) metrics() (spacr.train_compare.TrainingRun method) micron_position() (spacr.ops_layout.WellLayout method) midi_to_hz() (in module spacr.qt.sound_synth) migrate_connection() (in module spacr.database_schema) migrate_crop_folder() (in module spacr.crops) migrate_crop_tree() (in module spacr.crops) migrate_database() (in module spacr.database_schema) migrate_prediction_columns() (in module spacr.predictions) migrate_unescaped_plate_names() (in module spacr.io) Migration (class in spacr.database_schema) MigrationReport (class in spacr.database_schema) MigrationResult (class in spacr.crops) minimum() (spacr.qt.widgets.eliding.ProgressLine method) minimum_cell_simulation() (in module spacr.ml) minimumSize() (spacr.qt.widgets.column_aligned_row.ColumnAlignedRow method) (spacr.qt.widgets.flow.FlowLayout method) minimumSizeHint() (spacr.qt.settings_search.SettingsSearchBar method) (spacr.qt.widgets.ai_toggle_label.AiToggleLabel method) (spacr.qt.widgets.api_help_label.ApiHelpLabel method) (spacr.qt.widgets.eliding.ElidingLabel method) (spacr.qt.widgets.eliding.ElidingPushButton method) (spacr.qt.widgets.home.AppTile method) (spacr.qt.widgets.tile.HTile method) (spacr.qt.widgets.toggle.Toggle method) mint_id() (spacr.batch.Queue method) misassign_reads() (in module spacr.power_simulate) missing() (in module spacr.columns) (in module spacr.example_data) (spacr.qt.model_install.SegmentationBackendCombo method) (spacr.regression_summary.RunSummary method) missing_databases() (in module spacr.plate_measurements) (spacr.qt.widgets.file_list.PairedFileTableWidget method) missing_level_note() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) missing_napari_message() (in module spacr.napari_bridge) missing_omero_message() (in module spacr.omero) missing_papers_packages() (in module spacr.qt.widgets.plaque_preview) missing_reader_message() (in module spacr.convert) missing_requirement() (in module spacr.regression_annotation) missing_sections (spacr.report.Report property) missing_sections() (spacr.qt.screens.report.ReportScreen method) missingness_leak() (in module spacr.merge_tables) MissingScores mixed_backends() (spacr.umap_search.SearchTable method) mixed_cost_note() (in module spacr.qt.screens.settings_model) MixedBackendUnavailable mixedlm_torch() (in module spacr.mixed_gpu) ml_analysis() (in module spacr.ml) MLR() (in module spacr.utils) mode() (spacr.qt.widgets.picture_settings_dialog.PictureSettingsDialog method) (spacr.qt.widgets.plaque_preview.PlaqueModeSwitch method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) (spacr.qt.widgets.setup_card.SetupCard method) mode_blend() (in module spacr.qt.resonance) mode_from_settings() (in module spacr.workspace) mode_label() (in module spacr.qt.preferences) mode_note() (in module spacr.qt.preferences) mode_warning() (in module spacr.qt.preferences) model() (spacr.qt.screens.profiler.ProfilerScreen method) model_api_link() (in module spacr.qt.screens.settings_model) model_card() (in module spacr.deep_spacr) model_card_url (spacr.model_zoo.ModelEntry property) model_configs() (spacr.qt.screens.model_compare.ModelCompareScreen method) model_configuration() (in module spacr.torch_artifacts) model_feature_columns() (in module spacr.schema) model_feature_frame() (in module spacr.schema) model_function (spacr.qt.widgets.dose_response.DoseResponseResult property) model_fusion() (in module spacr.deep_spacr) model_knowledge_transfer() (in module spacr.deep_spacr) model_metrics() (in module spacr.utils) model_providers() (in module spacr.plugins) model_was_remapped (spacr.model_compare.ModelConfig property) ModelCompareScreen (class in spacr.qt.screens.model_compare) ModelConfig (class in spacr.model_compare) ModelData (class in spacr.power_model) ModelEntry (class in spacr.model_zoo) ModelExplanationScreen (class in spacr.qt.screens.model_explanation) ModelProviderContribution (class in spacr.plugins) ModelReport (class in spacr.model_check) ModelUnreadable ModelZooDropHandler (class in spacr.qt.dnd_handlers) ModelZooError ModelZooMissing ModelZooPicker (class in spacr.qt.widgets.model_zoo_picker) ModelZooScreen (class in spacr.qt.screens.model_zoo) MODES (in module spacr.workspace) modes() (in module spacr.picture_settings) (in module spacr.qt.cpu_modes) (in module spacr.qt.organelle_modes) modified_keys() (spacr.qt.screens.settings_model.SettingsWidgets method) modified_only() (spacr.qt.settings_search.SettingsSearchBar method) module spacr spacr._starplast spacr.accelerator spacr.active_learning spacr.agreement spacr.align spacr.anndata_export spacr.annotation spacr.annotation_dataset spacr.annotation_power spacr.annotation_umap_qc spacr.annotation_validation spacr.api spacr.artifacts spacr.attribution spacr.attribution_columns spacr.barcode_search spacr.baseline spacr.batch spacr.batch_correction spacr.benchmark spacr.bystanders spacr.cancellation spacr.cell_montage spacr.chaining spacr.checkpoint spacr.classification_pixels spacr.classifier_evaluation spacr.classifier_quality spacr.classify spacr.classify_classes spacr.cli spacr.cli_database spacr.cli_download spacr.cli_leakage spacr.cli_make_masks spacr.cli_plugins spacr.cli_remote spacr.cli_repro spacr.cli_workspace spacr.column_groups spacr.columns spacr.confusion spacr.control_names spacr.convert spacr.core spacr.counting spacr.crashreport spacr.crop_loader spacr.crop_source spacr.crops spacr.curation spacr.curation_queue spacr.custom_features spacr.data_manager spacr.database_concurrency spacr.database_schema spacr.deep_spacr spacr.dependent_join spacr.diameter spacr.doctor spacr.embeddings spacr.errors spacr.example_archives spacr.example_data spacr.example_data_manifest spacr.external_masks spacr.feature_dict spacr.figure_font spacr.figure_sink spacr.figure_style spacr.figures spacr.figures.bundle spacr.figures.distributions spacr.figures.fast_render spacr.figures.headless spacr.figures.panels spacr.figures.plates spacr.figures.scene spacr.figures.sheet spacr.figures.spread spacr.figures.stats spacr.figures.style spacr.figures.summary spacr.filters spacr.fit_resources spacr.flowview spacr.flowview.classify_blueprint spacr.flowview.collector spacr.flowview.events spacr.flowview.export spacr.flowview.feeder spacr.flowview.items spacr.flowview.layout spacr.flowview.model spacr.flowview.panel spacr.flowview.theme spacr.flowview.thumbs spacr.flowview.trace spacr.foreign spacr.fraction_calibration spacr.frame_handoff spacr.gate_library spacr.gene_facts spacr.gene_measurement_compare spacr.gene_measurement_sweep spacr.gene_tile spacr.gpu_reduce spacr.graph_types spacr.group_lasso spacr.guide_attribution spacr.guide_concordance spacr.guide_permutation spacr.hit_attribution spacr.hit_investigation spacr.hits spacr.host_pathogen spacr.host_pathogen_example spacr.host_pathogen_preview spacr.hyperparam spacr.illumination spacr.image_colors spacr.image_import spacr.image_quality spacr.image_stitch spacr.import_examples spacr.import_plan spacr.infection spacr.inference_augmentation spacr.install_cleanup spacr.install_profile spacr.intensity_rescale spacr.io spacr.layers spacr.lineage spacr.localisation spacr.logger spacr.logging_util spacr.macro spacr.mask_io spacr.measure spacr.measure_hooks spacr.measurement_scan spacr.measurement_schema spacr.merge_tables spacr.metadata_resolution spacr.methods_export spacr.mixed_gpu spacr.ml spacr.model_check spacr.model_compare spacr.model_zoo spacr.multi_database spacr.multiple_testing spacr.napari_bridge spacr.nonparametric_fits spacr.normalization spacr.notebook_export spacr.object spacr.object_classifier spacr.object_distances spacr.object_roles spacr.object_settings_table spacr.ome_zarr spacr.omero spacr.openmp_guard spacr.ops_accel spacr.ops_compose spacr.ops_cycles spacr.ops_engine spacr.ops_layout spacr.ops_merge spacr.ops_objects spacr.ops_phenotype spacr.ops_register spacr.ops_sample spacr.ops_sbs spacr.ops_settings spacr.ops_solve spacr.ops_stitch spacr.ops_store spacr.organelle_types spacr.outlier_filter spacr.parameter_sweep spacr.permutation_qc spacr.picture_settings spacr.pipeline_graph spacr.pipeline_v2 spacr.plaque spacr.plaque_growth spacr.plaque_papers spacr.plate_measurements spacr.plate_qc spacr.plot spacr.plugins spacr.png_list spacr.point_patterns spacr.point_spread spacr.portable_paths spacr.ports spacr.power_model spacr.power_simulate spacr.predictions spacr.profiler spacr.projects spacr.psf_measurement spacr.psf_pipeline spacr.qc_quarantine spacr.qt spacr.qt.ai spacr.qt.ai.cli_install spacr.qt.ai.github_auth spacr.qt.ai.issue_preview spacr.qt.ai.issue_report spacr.qt.ai.keys spacr.qt.ai.manuscript spacr.qt.ai.prompts spacr.qt.ai.providers spacr.qt.ai.pty_sign_in spacr.qt.ai.settings spacr.qt.ai.worker spacr.qt.annotate_engine spacr.qt.app spacr.qt.app_catalog spacr.qt.ask_for_the_path spacr.qt.assay_examples spacr.qt.bridge spacr.qt.button_roles spacr.qt.chaining spacr.qt.command_palette spacr.qt.comparison_grid spacr.qt.counting_tool spacr.qt.cpu_modes spacr.qt.crash_recovery spacr.qt.crop_thumbs spacr.qt.curation_tool spacr.qt.detect_chain spacr.qt.dialogs spacr.qt.dnd spacr.qt.dnd_handlers spacr.qt.first_run spacr.qt.folder_metadata spacr.qt.fractal_defaults spacr.qt.gc_policy spacr.qt.gil_priority spacr.qt.gui_scale spacr.qt.help_api_index spacr.qt.help_index spacr.qt.help_search spacr.qt.hf_download spacr.qt.hidpi spacr.qt.i18n spacr.qt.i18n_module_summaries spacr.qt.i18n_module_summaries_asia spacr.qt.i18n_module_summaries_other spacr.qt.i18n_module_summaries_west spacr.qt.iconset spacr.qt.imagery spacr.qt.import_demo spacr.qt.ingest_preview spacr.qt.install_consent spacr.qt.job_runner spacr.qt.laptop_mode spacr.qt.layer_viewer spacr.qt.linked_selection spacr.qt.live_zoom spacr.qt.logging_util spacr.qt.make_masks_datasets spacr.qt.make_masks_demo spacr.qt.mask_engine spacr.qt.maturity spacr.qt.memory_budget spacr.qt.menus spacr.qt.model_install spacr.qt.module_hints spacr.qt.multi_format spacr.qt.night_themes spacr.qt.notify spacr.qt.ops_stitch_demo spacr.qt.organelle_modes spacr.qt.organisms spacr.qt.ortho_view spacr.qt.path_probe spacr.qt.plate_queue spacr.qt.preferences spacr.qt.preferences_navigation spacr.qt.prefs spacr.qt.prerun spacr.qt.preview_registry spacr.qt.recipes spacr.qt.regex_detect spacr.qt.regex_editor spacr.qt.resonance spacr.qt.resource_cleanup spacr.qt.roi_tool spacr.qt.safespacr spacr.qt.screens spacr.qt.screens.activation spacr.qt.screens.agreement spacr.qt.screens.align spacr.qt.screens.annotate spacr.qt.screens.app_screen spacr.qt.screens.batch spacr.qt.screens.classifier_evaluation spacr.qt.screens.classify spacr.qt.screens.control_chart spacr.qt.screens.convert spacr.qt.screens.curate spacr.qt.screens.data_manager spacr.qt.screens.db_browser spacr.qt.screens.distributed_jobs spacr.qt.screens.dose_response spacr.qt.screens.embeddings spacr.qt.screens.experiment_design spacr.qt.screens.feature_explorer spacr.qt.screens.foreign spacr.qt.screens.gate_editor spacr.qt.screens.graph_builder spacr.qt.screens.hit_list spacr.qt.screens.hyperparam spacr.qt.screens.image_import spacr.qt.screens.image_scatter spacr.qt.screens.image_umap spacr.qt.screens.investigate_hit spacr.qt.screens.lineage spacr.qt.screens.make_masks spacr.qt.screens.map_barcodes spacr.qt.screens.mask spacr.qt.screens.measure spacr.qt.screens.measure_inputs spacr.qt.screens.methods_export spacr.qt.screens.model_compare spacr.qt.screens.model_explanation spacr.qt.screens.model_zoo spacr.qt.screens.organism_screen spacr.qt.screens.outliers spacr.qt.screens.parameter_sweep spacr.qt.screens.pca spacr.qt.screens.pipeline_graph spacr.qt.screens.plate_view spacr.qt.screens.power spacr.qt.screens.profiler spacr.qt.screens.project_browser spacr.qt.screens.qc_dashboard spacr.qt.screens.queue spacr.qt.screens.regression spacr.qt.screens.report spacr.qt.screens.run_compare spacr.qt.screens.run_history spacr.qt.screens.setting_api_targets spacr.qt.screens.settings_flow_index spacr.qt.screens.settings_model spacr.qt.screens.tabulate spacr.qt.screens.train_cellpose spacr.qt.screens.train_compare spacr.qt.screens.trellis spacr.qt.screens.volcano spacr.qt.screensaver spacr.qt.secondary_masks spacr.qt.settings_diff spacr.qt.settings_pack spacr.qt.settings_search spacr.qt.setup_screen spacr.qt.shortcuts spacr.qt.shutdown spacr.qt.sound spacr.qt.sound_preferences spacr.qt.sound_synth spacr.qt.space spacr.qt.spaceout spacr.qt.stall_watch spacr.qt.starplast spacr.qt.startup_benchmark spacr.qt.synthetic spacr.qt.terms spacr.qt.terms_i18n spacr.qt.theme spacr.qt.thread_guard spacr.qt.timing spacr.qt.tooltip_policy spacr.qt.tutorials spacr.qt.verbose_logger spacr.qt.walkthrough spacr.qt.wand_rescue spacr.qt.widget_cleanup spacr.qt.widgets spacr.qt.widgets.activity_spinner spacr.qt.widgets.aggregation_rules spacr.qt.widgets.ai_chat_panel spacr.qt.widgets.ai_toggle_label spacr.qt.widgets.ambient spacr.qt.widgets.animation_zoom spacr.qt.widgets.annotation_strategy_panel spacr.qt.widgets.annotation_umap_tab spacr.qt.widgets.api_help_label spacr.qt.widgets.availability_panel spacr.qt.widgets.barcode_regex spacr.qt.widgets.card spacr.qt.widgets.cell_montage_view spacr.qt.widgets.channel_mapping spacr.qt.widgets.channel_picker spacr.qt.widgets.class_editor spacr.qt.widgets.cli_setup_panel spacr.qt.widgets.collapsible_section spacr.qt.widgets.collapsible_splitter spacr.qt.widgets.colour_picker spacr.qt.widgets.column_aligned_row spacr.qt.widgets.column_picker spacr.qt.widgets.console_panel spacr.qt.widgets.control_chart spacr.qt.widgets.cursor_policy spacr.qt.widgets.cursor_zoom spacr.qt.widgets.data_filter_panel spacr.qt.widgets.database_set spacr.qt.widgets.divider spacr.qt.widgets.dna_rain spacr.qt.widgets.dna_rain_settings spacr.qt.widgets.dock spacr.qt.widgets.dose_response spacr.qt.widgets.dot_link spacr.qt.widgets.drawer spacr.qt.widgets.eliding spacr.qt.widgets.empty_state spacr.qt.widgets.external_mask_inputs spacr.qt.widgets.fast_plots spacr.qt.widgets.feature_dictionary spacr.qt.widgets.feature_explorer spacr.qt.widgets.feature_rank spacr.qt.widgets.field_fade spacr.qt.widgets.figure_grid spacr.qt.widgets.figure_grid_view spacr.qt.widgets.figure_queue spacr.qt.widgets.figure_settings spacr.qt.widgets.file_list spacr.qt.widgets.flash spacr.qt.widgets.flow spacr.qt.widgets.fold_strip spacr.qt.widgets.foldable spacr.qt.widgets.folding_summary spacr.qt.widgets.formula spacr.qt.widgets.formula_editor spacr.qt.widgets.fractal_cascade spacr.qt.widgets.fractal_mandelbrot spacr.qt.widgets.fractal_orbit_gpu spacr.qt.widgets.fractal_regions spacr.qt.widgets.fractal_space spacr.qt.widgets.fractal_travel spacr.qt.widgets.gate_canvas spacr.qt.widgets.gate_console spacr.qt.widgets.gate_editor spacr.qt.widgets.gate_search_panel spacr.qt.widgets.gate_settings spacr.qt.widgets.gate_spec spacr.qt.widgets.gene_panel spacr.qt.widgets.gene_tile spacr.qt.widgets.glass spacr.qt.widgets.graph_builder spacr.qt.widgets.graph_spec spacr.qt.widgets.grouped_plot spacr.qt.widgets.height_grip spacr.qt.widgets.hint_bar spacr.qt.widgets.home spacr.qt.widgets.host_pathogen_preview spacr.qt.widgets.hover_tooltip spacr.qt.widgets.image_ruler spacr.qt.widgets.import_workbench spacr.qt.widgets.info_link spacr.qt.widgets.live_preview spacr.qt.widgets.loading_screen spacr.qt.widgets.make_masks_help spacr.qt.widgets.mask_comparison spacr.qt.widgets.measure_input_table spacr.qt.widgets.measure_preview spacr.qt.widgets.measurement_compare_dialog spacr.qt.widgets.measurement_scan_panel spacr.qt.widgets.measurements_example spacr.qt.widgets.metadata_mapper spacr.qt.widgets.metadata_table spacr.qt.widgets.model_share spacr.qt.widgets.model_share_dialog spacr.qt.widgets.model_zoo_picker spacr.qt.widgets.module_hint_bar spacr.qt.widgets.motility_preview spacr.qt.widgets.object_grid_binding spacr.qt.widgets.object_settings_grid spacr.qt.widgets.organism_diagram spacr.qt.widgets.outlier_model spacr.qt.widgets.pca_model spacr.qt.widgets.pca_view spacr.qt.widgets.percentile_pair spacr.qt.widgets.picture_export spacr.qt.widgets.picture_settings_dialog spacr.qt.widgets.pipeline_details spacr.qt.widgets.pivot_builder spacr.qt.widgets.pivot_spec spacr.qt.widgets.plaque_preview spacr.qt.widgets.plate_layout spacr.qt.widgets.plate_map_picker spacr.qt.widgets.popup_state spacr.qt.widgets.power_design spacr.qt.widgets.preview_contract spacr.qt.widgets.preview_controls spacr.qt.widgets.preview_refresh spacr.qt.widgets.preview_scale spacr.qt.widgets.primary_mask_selector spacr.qt.widgets.provider_marks spacr.qt.widgets.psf_controls spacr.qt.widgets.qc_field_browser spacr.qt.widgets.qc_summary spacr.qt.widgets.read_view spacr.qt.widgets.refit_dialog spacr.qt.widgets.regression_results spacr.qt.widgets.restoration_controls spacr.qt.widgets.row_exclusion spacr.qt.widgets.sample_project spacr.qt.widgets.save_figure_dialog spacr.qt.widgets.screen_data_picker spacr.qt.widgets.section spacr.qt.widgets.segmentation_views spacr.qt.widgets.settings_advisor_dialog spacr.qt.widgets.setup_card spacr.qt.widgets.setup_dialog spacr.qt.widgets.setup_slides spacr.qt.widgets.sortable_table spacr.qt.widgets.sra_picker spacr.qt.widgets.sweep_panel spacr.qt.widgets.sweep_runs spacr.qt.widgets.table_chip spacr.qt.widgets.test_data_chooser spacr.qt.widgets.tile spacr.qt.widgets.tile_chrome spacr.qt.widgets.timelapse_movie spacr.qt.widgets.timelapse_preview spacr.qt.widgets.toggle spacr.qt.widgets.training_monitor spacr.qt.widgets.trellis_spec spacr.qt.widgets.trellis_view spacr.qt.widgets.umap_explorer spacr.qt.widgets.umap_figure_settings spacr.qt.widgets.umap_search_viewer spacr.qt.widgets.usage_bar spacr.qt.widgets.volcano_explorer spacr.qt.widgets.volume_view spacr.qt.widgets.workflow_diagram spacr.qt.widgets.zoom_view spacr.read_background spacr.refit spacr.regex_infer spacr.regression_annotation spacr.regression_backends spacr.regression_diagnostics spacr.regression_failure spacr.regression_families spacr.regression_layout spacr.regression_panels spacr.regression_qc spacr.regression_search spacr.regression_spec spacr.regression_summary spacr.remote_execution spacr.report spacr.resource_log spacr.response_distribution spacr.restart_state spacr.resume spacr.roi spacr.row_exclusions spacr.rra spacr.run_compare spacr.run_journal spacr.run_recommendations spacr.runctx spacr.schema spacr.scorecard spacr.screen_data spacr.seg_qc spacr.selection spacr.sequencing spacr.sequencing_qc spacr.setting_animations spacr.settings spacr.settings_advisor spacr.settings_spec spacr.sim spacr.sp_stats spacr.spacr_cellpose spacr.sra spacr.stream_dataset spacr.style_base spacr.submodules spacr.sudoku spacr.suggest spacr.surrogate spacr.sweep_child spacr.tabular spacr.thresholds spacr.tiff_io spacr.timeflows_baseline spacr.timeflows_model spacr.timeflows_qc spacr.timeflows_validation spacr.timelapse spacr.torch_artifacts spacr.toxo spacr.train_compare spacr.training_basis spacr.trial_metrics spacr.umap_annotations spacr.umap_search spacr.uniprot spacr.updater spacr.utils spacr.validate spacr.version spacr.volcano_style spacr.well_scope spacr.well_spec spacr.workspace spacr.zstack

Module (class in spacr.cli) module_defaults() (in module spacr.cli) (in module spacr.macro) module_entries() (in module spacr.qt.help_index) module_graph() (in module spacr.pipeline_graph) module_hint_text() (in module spacr.qt.module_hints) module_key (spacr.qt.widgets.module_hint_bar.ModuleHintBar property) module_mark() (in module spacr.qt.widgets.section) module_maturity() (in module spacr.qt.screens.app_screen) module_name (spacr.cli.Module property) module_ports() (in module spacr.ports) module_states() (in module spacr.projects) module_summary() (in module spacr.qt.i18n_module_summaries) ModuleGraph (class in spacr.pipeline_graph) ModuleHeader (class in spacr.qt.screens.app_screen) ModuleHintBar (class in spacr.qt.widgets.module_hint_bar) ModulePorts (class in spacr.ports) modules (spacr.macro.Macro property) ModuleState (class in spacr.projects) Moment (class in spacr.qt.resonance) monotonicity() (in module spacr.qt.widgets.dose_response) MonotonicityCheck (class in spacr.qt.widgets.dose_response) montage_cap_cost() (in module spacr.picture_settings) montage_figure() (in module spacr.qt.widgets.cell_montage_view) montage_route_requirements() (in module spacr.cell_montage) MontageError MontageLoad (class in spacr.qt.widgets.cell_montage_view) MontagePlan (class in spacr.cell_montage) MontageRequest (class in spacr.qt.widgets.cell_montage_view) more_than_a_message() (in module spacr.qt.dialogs) morphologies_for_method() (in module spacr.organelle_types) morphology_for() (spacr.organelle_types.OrganelleType method) Mosaic (class in spacr.image_stitch) MotilityInputError MotilityPreviewPanel (class in spacr.qt.widgets.motility_preview) MotilityRequest (class in spacr.qt.widgets.motility_preview) MotilitySummary (class in spacr.qt.widgets.motility_preview) Motion (class in spacr.qt.widgets.ambient) mount() (spacr.qt.screens.map_barcodes.CategoryFold method) (spacr.qt.screens.map_barcodes.CategoryFoldSet method) mouseDoubleClickEvent() (spacr.qt.layer_viewer.LayerCanvas method) (spacr.qt.widgets.dock.DockEdge method) mouseMoveEvent() (spacr.qt.layer_viewer.LayerCanvas method) (spacr.qt.screens.image_scatter.ScatterCanvas method) (spacr.qt.widgets.dock.DockEdge method) (spacr.qt.widgets.height_grip.HeightGrip method) (spacr.qt.widgets.setup_card.SetupCard method) (spacr.qt.widgets.setup_slides.SetupSlides method) (spacr.qt.widgets.toggle.Toggle method) (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView method) mousePressEvent() (spacr.qt.layer_viewer.LayerCanvas method) (spacr.qt.ortho_view.OrthoPanel method) (spacr.qt.screens.align.TileLayoutWidget method) (spacr.qt.screens.image_scatter.ScatterCanvas method) (spacr.qt.screens.pipeline_graph.GraphCanvas method) (spacr.qt.screens.plate_view.PlateGridWidget method) (spacr.qt.screensaver.Screensaver method) (spacr.qt.shortcuts.ShortcutOverlay method) (spacr.qt.widgets.ai_toggle_label.AiToggleLabel method) (spacr.qt.widgets.dna_rain_settings.DnaRainSettingsPopover method) (spacr.qt.widgets.dock.DockEdge method) (spacr.qt.widgets.height_grip.HeightGrip method) (spacr.qt.widgets.provider_marks.ProviderMark method) (spacr.qt.widgets.toggle.Toggle method) (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView method) mouseReleaseEvent() (spacr.qt.layer_viewer.LayerCanvas method) (spacr.qt.widgets.dock.DockEdge method) (spacr.qt.widgets.height_grip.HeightGrip method) (spacr.qt.widgets.toggle.Toggle method) (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView method) move() (spacr.batch.Queue method) (spacr.layers.LayerStack method) (spacr.qt.curation_tool.BrushTool method) (spacr.qt.layer_viewer.CanvasTool method) (spacr.qt.widgets.mask_comparison.MaskComparisonDialog method) move_selected() (spacr.qt.screens.batch.BatchScreen method) move_to() (spacr.qt.ortho_view.OrthoView method) moved (spacr.chaining.Resolution property) (spacr.run_compare.HitDiff property) moves (spacr.baseline.Baseline property) (spacr.updater.DryRun property) movie_field_payload() (in module spacr.qt.widgets.timelapse_preview) movie_worker_interrupted() (in module spacr.qt.widgets.timelapse_preview) MovieFieldCancelled movies() (spacr.qt.widgets.timelapse_movie.TimelapseMoviePanel method) multiplicity_distribution() (in module spacr.infection) MultiprocessingFeeder (class in spacr.flowview.feeder) MultiScaleBlockWithAttention (class in spacr.utils) multivariate_shortfall() (spacr.qt.widgets.cell_montage_view.CellMontageView method) mutual_info_of() (in module spacr.qt.widgets.feature_rank)

N

n (spacr.qt.widgets.graph_spec.FacetPanel property) (spacr.qt.widgets.trellis_spec.TrellisPanel property) (spacr.regression_qc.RegressionQCContext property) n_added (spacr.qt.settings_diff.CategoryDiff property) (spacr.qt.settings_diff.SettingsDiff property) n_annotators (spacr.agreement.AgreementReport property) n_at() (spacr.qt.widgets.pivot_spec.PivotResult method) (spacr.qt.widgets.trellis_spec.Trellis method) n_attempted (spacr.errors.RunLedger property) n_both_empty (spacr.model_compare.ComparisonReport property) n_cells (spacr.qt.widgets.pivot_spec.PivotResult property) n_changed (spacr.qt.settings_diff.CategoryDiff property) (spacr.qt.settings_diff.SettingsDiff property) n_channels (spacr.align.Tile property) (spacr.layers.ImageLayer property) n_chunks (spacr.ome_zarr.Level property) n_classes (spacr.attribution.ClassScoreModel property) n_columns (spacr.qt.widgets.dna_rain.DnaRainEngine property) n_components (spacr.qt.widgets.pca_model.PCAResult property) n_done (spacr.resume.ResumeState property) n_draws (spacr.power_model.PowerFit property) n_empty (spacr.qt.widgets.trellis_spec.Trellis property) n_epochs (spacr.train_compare.Series property) (spacr.train_compare.TrainingRun property) n_failed (spacr.errors.RunLedger property) (spacr.hyperparam.SearchResult property) (spacr.model_zoo.BenchmarkResult property) n_features (spacr.qt.widgets.outlier_model.OutlierResult property) (spacr.qt.widgets.pca_model.PCAResult property) n_fields (spacr.foreign.ImportResult property) (spacr.model_compare.ComparisonReport property) (spacr.model_zoo.BenchmarkResult property) (spacr.scorecard.HoldoutScore property) (spacr.seg_qc.QCDigest property) n_files (spacr.import_plan.ImportPlan property) n_flagged (spacr.qt.widgets.outlier_model.OutlierResult property) n_genes (spacr.power_model.ModelData property) n_guides (spacr.gene_tile.GeneTile property) n_images (spacr.omero.ContainerListing property) n_library_units (spacr.qt.widgets.power_design.DesignSpec property) n_matched (spacr.import_plan.ImportPlan property) n_measurements_scanned (spacr.measurement_scan.ScanResult property) n_no_object (spacr.foreign.JoinReport property) n_nominal (spacr.align.AlignPlan property) n_not_scored (spacr.qt.widgets.outlier_model.OutlierResult property) n_objects (spacr.cell_montage.MontagePlan property) (spacr.qt.widgets.cell_montage_view.MontageLoad property) (spacr.zstack.ZStackResult property) n_objects_unmeasured (spacr.foreign.JoinReport property) n_occupied (spacr.qt.widgets.trellis_spec.Trellis property) n_ok (spacr.model_zoo.BenchmarkResult property) n_omitted (spacr.report.Table property) n_panels (spacr.qt.widgets.graph_spec.FacetGrid property) (spacr.qt.widgets.trellis_spec.Trellis property) n_parameters (spacr.qt.widgets.dose_response.DoseResponseResult property) n_pending (spacr.resume.ResumeState property) n_planes (spacr.omero.ContainerListing property) (spacr.omero.ImageInfo property) n_range() (spacr.qt.widgets.pivot_spec.PivotResult method) (spacr.qt.widgets.trellis_spec.Trellis method) n_registered (spacr.align.AlignPlan property) n_rejected (spacr.resume.ResumeState property) n_removed (spacr.qt.settings_diff.CategoryDiff property) (spacr.qt.settings_diff.SettingsDiff property) n_rows (spacr.foreign.ImportResult property) (spacr.qt.widgets.dna_rain.DnaRainEngine property) n_shared (spacr.run_compare.HitDiff property) n_skipped (spacr.convert.ConversionResult property) (spacr.resume.ResumeState property) (spacr.runctx.ErrorPolicy property) n_slices() (spacr.layers.OrthoViews method) n_sources (spacr.convert.ConversionPlan property) n_stale (spacr.projects.ProjectSummary property) n_succeeded (spacr.errors.RunLedger property) n_unique_wells (spacr.regression_qc.RegressionQCContext property) n_unresolved (spacr.foreign.JoinReport property) n_wells (spacr.power_model.ModelData property) (spacr.qt.widgets.outlier_model.OutlierResult property) (spacr.qt.widgets.power_design.DesignSpec property) n_written (spacr.convert.ConversionResult property) name (spacr.align.Tile property) (spacr.gene_tile.GeneCandidate property) (spacr.hits.Hit property) (spacr.layers.Layer property) (spacr.multi_database.SourceSummary property) (spacr.qt.ortho_view.OrthoPanel property) (spacr.qt.widgets.gate_spec.GateClause property) (spacr.qt.widgets.preview_scale.PreviewScaler property) (spacr.qt.widgets.table_chip.TableChip property) (spacr.zstack.AxisOrder property) name_edit() (spacr.qt.widgets.column_picker.ColumnPickerDialog method) name_for() (spacr.qt.widgets.home.RecentRunsPanel method) name_label (spacr.qt.widgets.home.AppTile property) (spacr.qt.widgets.tile.HTile property) name_the_application() (in module spacr.qt.menus) name_the_effect() (spacr.qt.widgets.fast_plots.VolcanoPlot method) name_the_macos_application_menu() (in module spacr.qt.menus) NameMapping (class in spacr.qt.folder_metadata) names (spacr.hyperparam.SearchSpace property) (spacr.layers.LayerStack property) (spacr.qt.widgets.formula.FormulaSet property) (spacr.qt.widgets.gate_spec.GateSet property) (spacr.settings.BarcodeSet property) naming_choices() (in module spacr.qt.screens.foreign) napari_available() (in module spacr.napari_bridge) NapariBridgeScreen (class in spacr.qt.screens.make_masks) NapariExtraMissing narrow_to_uint8() (in module spacr.crops) native() (in module spacr.qt.shortcuts) nbytes (spacr.align.CanvasSpec property) (spacr.ome_zarr.Level property) ndim (spacr.layers.ImageLayer property) (spacr.layers.LabelsLayer property) (spacr.layers.Layer property) (spacr.layers.PointsLayer property) (spacr.layers.Shape property) (spacr.layers.ShapesLayer property) (spacr.layers.Spacing property) (spacr.measure_hooks.RegionContext property) (spacr.ome_zarr.Level property) near_miss() (in module spacr.qt.widgets.column_picker)

near_miss_column() (spacr.qt.widgets.column_picker.ColumnPickerDialog method) near_misses() (in module spacr.uniprot) nearest() (spacr.layers.PointsLayer method) nearest_corner() (spacr.qt.widgets.setup_card.SetupCard method) nearest_neighbours() (in module spacr.ops_accel) nearest_point() (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) needs (spacr.qt.ai.cli_install.InstallPlan property) needs_agreement() (in module spacr.qt.terms) needs_curated_layout() (in module spacr.qt.screens.settings_model) needs_warning() (in module spacr.intensity_rescale) neighbour_purity() (in module spacr.annotation_umap_qc) neighbourhood() (in module spacr.bystanders) neighbours() (spacr.ops_layout.WellLayout method) nested_group_folds() (in module spacr.classifier_evaluation) neural_engines() (in module spacr.accelerator) new_ledger() (spacr.runctx.RunContext method) new_run_id() (in module spacr.runctx) news_cache_path() (in module spacr.updater) news_panel (spacr.qt.widgets.home.HomePage property) NewsPanel (class in spacr.qt.widgets.home) next() (spacr.qt.widgets.setup_slides.SetupSlides method) next_field() (spacr.qt.widgets.qc_field_browser.QCFieldBrowser method) next_label() (in module spacr.qt.mask_engine) next_modules() (in module spacr.ports) next_of() (spacr.pipeline_graph.ModuleGraph method) next_organelle() (spacr.qt.widgets.object_settings_grid.ObjectSettingsGrid method) next_png_table() (in module spacr.annotation_dataset) next_queued() (spacr.qt.plate_queue.PlateQueue method) next_round() (in module spacr.active_learning) next_steps() (in module spacr.chaining) NextStep (class in spacr.chaining) ngff_unit_to_spacr() (in module spacr.ome_zarr) NightTheme (class in spacr.qt.night_themes) NO_COVARIATE (in module spacr.batch_correction) NoClassDataset (class in spacr.io) Node (class in spacr.flowview.model) (class in spacr.pipeline_graph) (class in spacr.qt.widgets.formula) node() (spacr.pipeline_graph.PipelineGraph method) node_accent() (in module spacr.flowview.theme) node_at() (spacr.qt.screens.pipeline_graph.GraphCanvas method) node_description() (in module spacr.qt.widgets.workflow_diagram) node_id (spacr.lineage.LineageNode property) node_ids() (spacr.lineage.LineageNode method) node_key() (in module spacr.lineage) node_rects() (spacr.qt.screens.pipeline_graph.GraphCanvas method) NodeAdded (class in spacr.flowview.events) NodeKind (class in spacr.flowview.model) NodeLayout (class in spacr.flowview.layout) NodeState (class in spacr.flowview.model) noise_level() (spacr.hyperparam.SearchResult method) nominal_placements() (spacr.align.AlignPlan method) none() (spacr.selection.Selection class method) nonuniformity() (spacr.illumination.IlluminationField method) NoObjectOpener normalise_count_table_layout() (in module spacr.regression_layout) normalise_extension() (in module spacr.crop_source) normalise_filters() (in module spacr.qt.mask_engine) normalise_fractions() (in module spacr.guide_attribution) normalise_levels() (in module spacr.logging_util) normalise_mode() (in module spacr.qt.widgets.plaque_preview) normalise_plate_columns() (in module spacr.schema) normalise_plate_ids() (in module spacr.multi_database) normalise_regression_level() (in module spacr.qt.screens.settings_model) normalise_to_controls() (in module spacr.qt.widgets.dose_response) normalise_well() (in module spacr.convert) normalised() (spacr.qt.widgets.plaque_preview.OverlayStyle method) normalised_unit_in (spacr.foreign.ColumnMap property) normalised_unit_out (spacr.foreign.ColumnMap property) normalization_stats() (in module spacr.normalization) normalize_and_visualize() (in module spacr.plot) normalize_array() (in module spacr.sim) normalize_cellpose_model_name() (in module spacr.settings) normalize_feature_filter() (in module spacr.utils) normalize_for_detection() (in module spacr.qt.mask_engine) normalize_language() (in module spacr.qt.i18n) normalize_object_filters() (in module spacr.qt.annotate_engine) normalize_pil() (in module spacr.qt.annotate_engine) normalize_probabilities() (in module spacr.classifier_evaluation) normalize_regression_input_pairs() (in module spacr.ml) normalize_row_exclusions() (in module spacr.row_exclusions) normalize_settings() (in module spacr.classify_classes) (in module spacr.training_basis) normalize_split_level() (in module spacr.classifier_evaluation) normalize_src_path() (in module spacr.utils) normalize_to_dtype() (in module spacr.utils) normalize_uint16() (in module spacr.qt.mask_engine) normalized() (spacr.attribution.Attribution method) NoSpatialLayerError not_run (spacr.batch.QueueResult property) note (spacr.run_compare.CountDiff property) (spacr.run_compare.HitDiff property) note() (spacr.control_names.ControlSpec method) (spacr.example_data.Fetched method) (spacr.guide_attribution.Preflight method) (spacr.projects.ProjectSummary method) (spacr.qt.help_search.HelpSearchField method) note_a_clean_shutdown() (in module spacr.qt.crash_recovery) note_console_error() (spacr.qt.screens.annotate.AnnotateScreen method) note_selection() (spacr.qt.widgets.fast_plots.FastPlot method) note_that_a_launch_began() (in module spacr.qt.crash_recovery) NotEnoughLabels notes() (spacr.model_compare.ModelConfig method) notes_view (spacr.qt.widgets.home.NewsPanel property) nothing_to_compare_against() (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) notice (spacr.qt.widgets.formula.ColumnResult property) notice() (spacr.qt.widgets.graph_builder.GraphCanvas method) notify() (in module spacr.qt.notify) notify_tray() (in module spacr.qt.notify) now_playing() (in module spacr.qt.resonance) NowPlaying (class in spacr.qt.resonance) nuclear_points() (in module spacr.ops_phenotype) nudge() (spacr.qt.widgets.height_grip.HeightGrip method) nudge_zoom_rate() (in module spacr.qt.widgets.fractal_travel) Number (class in spacr.qt.widgets.formula) number() (in module spacr.ops_objects) (spacr.qt.widgets.measurement_scan_panel.WorkflowStep method) numeric_columns() (in module spacr.plate_qc) (spacr.qt.widgets.fast_plots.FastPlot method) numeric_value() (in module spacr.qt.widgets.sortable_table) numpy_to_qpixmap() (in module spacr.qt.widgets.live_preview)

O

object_bounds() (in module spacr.crop_source) object_centroids() (in module spacr.timeflows_model) object_classes() (in module spacr.crop_loader) object_count_delta (spacr.model_compare.ComparisonReport property) (spacr.model_compare.SegComparison property) object_distances() (in module spacr.object_distances) object_filter_area_floor() (in module spacr.qt.mask_engine) object_frame() (spacr.qt.widgets.outlier_model.OutlierResult method) object_id() (in module spacr.schema) object_identity() (in module spacr.gene_measurement_compare) object_index() (in module spacr.schema) object_key() (spacr.layers.FieldKey method) object_key_at_world() (spacr.layers.LabelsLayer method) object_key_column() (in module spacr.confusion) object_keys() (in module spacr.merge_tables) (in module spacr.selection) (spacr.layers.FieldKey method) (spacr.layers.LabelsLayer method) object_keys_for() (in module spacr.confusion) object_label() (in module spacr.qt.screens.foreign) object_label_from_png_id() (in module spacr.utils) object_of_setting() (in module spacr.qt.screens.settings_model) object_opener_kinds() (in module spacr.qt.linked_selection) (spacr.qt.linked_selection.LinkedSelection method) object_overlap() (in module spacr.model_compare) object_palette() (in module spacr.qt.widgets.plaque_preview) object_polygons() (in module spacr.mask_io) object_role() (in module spacr.qt.widgets.live_preview) object_switch_keys() (in module spacr.qt.screens.settings_model) object_table_schema() (in module spacr.schema) object_tables() (in module spacr.filters) object_type_prefix() (in module spacr.schema) object_type_summary() (in module spacr.schema) object_types (spacr.external_masks.ExternalMaskPlan property) (spacr.seg_qc.QCDigest property) ObjectFilterList (class in spacr.qt.screens.make_masks) ObjectGridBinding (class in spacr.qt.widgets.object_grid_binding) ObjectID (class in spacr.schema) Objective (class in spacr.point_spread) objective() (in module spacr.point_spread) objectLabel (spacr.schema.ObjectID property) ObjectLookup (class in spacr.qt.mask_engine) ObjectRemoval (class in spacr.qt.mask_engine) ObjectRequest (class in spacr.selection) objects() (spacr.qt.widgets.object_settings_grid.ObjectSettingsGrid method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsModel method) objects_frame() (in module spacr.ops_objects) (spacr.qt.screens.outliers.OutliersScreen method) objects_in_window() (in module spacr.ops_objects) objects_per_timepoint (spacr.zstack.TStackResult property) objects_ready() (in module spacr.ops_store) objects_to_show() (in module spacr.cell_montage) ObjectsError ObjectSettingsGrid (class in spacr.qt.widgets.object_settings_grid) ObjectSettingsModel (class in spacr.qt.widgets.object_settings_grid) ObjectTableSchema (class in spacr.schema) ObjectTableSchemaError objectType (spacr.schema.ObjectID property) odd_plates (spacr.multi_database.SourceSummary property) of() (in module spacr.localisation) of_parent (spacr.qt.widgets.gate_spec.GateStats property) of_total (spacr.qt.widgets.gate_spec.GateStats property) off_plate_reason() (in module spacr.convert) offences() (in module spacr.qt.thread_guard) offer() (in module spacr.graph_types) offer_baselines() (spacr.qt.widgets.fast_plots.FastPlot method) offer_compartments() (spacr.qt.widgets.fast_plots.FastPlot method) offer_corrections() (spacr.qt.widgets.fast_plots.FastPlot method) offer_elsewhere() (in module spacr.updater) offer_encodings() (spacr.qt.widgets.fast_plots.FastPlot method) offer_impossible() (in module spacr.updater) offer_install() (in module spacr.updater) (spacr.qt.model_install.SegmentationBackendCombo method) offer_levels() (spacr.qt.widgets.fast_plots.FastPlot method) offer_marks() (spacr.qt.widgets.fast_plots.FastPlot method) offer_p_values() (spacr.qt.widgets.fast_plots.FastPlot method) offer_ready() (in module spacr.updater) offer_refit() (spacr.qt.widgets.fast_plots.FastPlot method) offer_smoothers() (spacr.qt.widgets.fast_plots.FastPlot method) offer_style() (spacr.qt.widgets.fast_plots.FastPlot method) offer_thresholds() (spacr.qt.widgets.fast_plots.FastPlot method) offered() (spacr.qt.screens.make_masks.ObjectFilterList method) offered_animation() (spacr.qt.widgets.hover_tooltip.HoverTooltip method) offered_values() (in module spacr.picture_settings) offers() (spacr.cell_montage.RouteRequirements method) offset() (spacr.ops_compose.Window method) offset_histogram() (spacr.barcode_search.OrientationFinding method) ok (spacr.batch.QueueResult property) (spacr.chaining.DropResolution property) (spacr.chaining.NextStep property) (spacr.convert.ConversionPlan property) (spacr.database_concurrency.ConcurrencyProbeResult property) (spacr.external_masks.ExternalMaskPlan property) (spacr.foreign.ImportPlan property) (spacr.foreign.PairingReport property) (spacr.hyperparam.SearchResult property) (spacr.hyperparam.Trial property) (spacr.install_cleanup.RemovalReport property) (spacr.qt.ai.cli_install.InstallOutcome property) (spacr.qt.widgets.cell_montage_view.MontageLoad property) omero_indices() (in module spacr.omero) OmeroConnection (class in spacr.omero) OmeroConnectionError OmeroContainerError OmeroError OmeroExtraMissing OmeroIdError OmeroRef (class in spacr.omero) OmeroWellError OmeZarrError OmeZarrImage (class in spacr.ome_zarr) omitted (spacr.crashreport.CrashReport property) on_apply_clicked() (spacr.qt.screens.map_barcodes.BarcodeSearchPanel method) on_cancel_clicked() (spacr.qt.screens.map_barcodes.BarcodeSearchPanel method) on_conflict() (spacr.qt.screens.foreign.ForeignScreen method) on_dark_theme() (in module spacr.qt.screens.annotate) on_linked_filter_changed() (spacr.qt.linked_selection.LinkedView method) (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.image_scatter.ImageScatterScreen method) (spacr.qt.screens.plate_view.PlateViewScreen method) (spacr.qt.widgets.graph_builder.GraphCanvas method) (spacr.qt.widgets.umap_explorer.ImageUmapExplorer method) on_linked_selection_changed() (spacr.qt.comparison_grid.ComparisonGrid method) (spacr.qt.layer_viewer.LayerViewer method) (spacr.qt.linked_selection.LinkedView method) (spacr.qt.ortho_view.OrthoView method) (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.image_scatter.ImageScatterScreen method) (spacr.qt.screens.lineage.LineageScreen method) (spacr.qt.widgets.graph_builder.GraphCanvas method) (spacr.qt.widgets.trellis_view.TrellisCanvas method) (spacr.qt.widgets.umap_explorer.ImageUmapExplorer method) on_search_clicked() (spacr.qt.screens.map_barcodes.BarcodeSearchPanel method) one_value_per_well() (in module spacr.figures.distributions) opacity (spacr.layers.Layer property) opacity() (spacr.qt.widgets.dna_rain.DnaRainSettingsBar method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) open() (spacr.qt.screens.map_barcodes.FoldOpener method) (spacr.qt.screens.regression.DiagnosticsOpener method) (spacr.qt.screens.regression.HitsOpener method) (spacr.qt.widgets.drawer.EdgeDrawer method) (spacr.qt.widgets.timelapse_preview.FrameSequence class method) open_a_training_dataset() (in module spacr.qt.make_masks_datasets) open_activation_maps() (spacr.qt.screens.model_explanation.ExplainCvPanel method) open_api_documentation() (spacr.qt.widgets.hover_tooltip.HoverTooltip method)

open_appearance_editor() (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView method) open_at() (spacr.qt.widgets.qc_field_browser.QCFieldBrowser method) open_at_its_natural_size() (in module spacr.qt.dialogs) open_candidates() (spacr.qt.screens.model_explanation.InvestigateHitPanel method) open_cell() (spacr.qt.screens.classifier_evaluation.ClassifierEvaluationScreen method) open_crop_settings() (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) open_crop_source() (in module spacr.io) open_database() (spacr.qt.screens.plate_view.PlateViewScreen method) open_display_settings() (spacr.qt.widgets.umap_explorer.ImageUmapExplorer method) open_documentation() (spacr.qt.widgets.info_link.InfoLink method) open_editor() (in module spacr.cli_make_masks) open_entry() (in module spacr.qt.help_search) open_error_flow() (spacr.qt.widgets.ai_chat_panel.AIChatPanel method) (spacr.qt.widgets.console_panel.ConsolePanel method) open_feature_dictionary() (in module spacr.qt.widgets.feature_dictionary) open_folded() (spacr.qt.screens.make_masks.MakeMasksScreen method) open_for() (spacr.qt.widgets.availability_panel.AvailabilityPanel method) open_for_keyboard() (spacr.qt.widgets.drawer.EdgeDrawer method) open_held_out_objects() (spacr.qt.screens.model_explanation.ExplainCvPanel method) open_in_napari() (in module spacr.napari_bridge) (spacr.qt.screens.make_masks.NapariBridgeScreen method) open_issue_in_browser() (in module spacr.qt.ai.issue_report) open_live_settings() (spacr.qt.widgets.live_preview.LivePreviewPanel method) open_mask() (spacr.qt.screens.curate.CurateScreen method) open_mask_comparison() (spacr.qt.widgets.live_preview.LivePreviewPanel method) open_measure_inputs() (in module spacr.qt.screens.measure_inputs) open_merged_field() (in module spacr.crops) open_module() (spacr.qt.app.MainWindow method) open_near() (spacr.qt.widgets.dna_rain_settings.DnaRainSettingsPopover method) open_object_request() (spacr.qt.screens.annotate.AnnotateScreen method) open_objects() (in module spacr.qt.linked_selection) (spacr.qt.linked_selection.LinkedSelection method) (spacr.qt.linked_selection.LinkedView method) open_output() (spacr.qt.screens.report.ReportScreen method) open_overlay_settings() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) open_page() (in module spacr.qt.screens.activation) open_paths() (spacr.qt.screens.make_masks.MakeMasksScreen method) open_picker() (spacr.qt.widgets.column_picker.ColumnPickerButton method) open_point() (spacr.qt.screens.image_scatter.ImageScatterScreen method) open_publication_figure() (in module spacr.qt.screens.regression) open_queue() (spacr.qt.screens.make_masks.MakeMasksScreen method) open_recipes() (in module spacr.qt.recipes) open_registry() (in module spacr.artifacts) open_request() (in module spacr.qt.linked_selection) (spacr.qt.linked_selection.LinkedSelection method) open_run() (in module spacr.run_journal) open_run_beside() (spacr.qt.screens.app_screen.AppScreen method) open_selected() (spacr.qt.screens.lineage.LineageScreen method) open_sequence_payload() (in module spacr.qt.widgets.timelapse_preview) open_settings() (spacr.qt.screens.gate_editor.GateEditorScreen method) (spacr.qt.screens.hyperparam.HyperparamPanel method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) open_setup_if_needed() (in module spacr.qt.widgets.setup_dialog) (in module spacr.qt.widgets.setup_slides) open_source() (spacr.qt.screens.image_scatter.ImageScatterScreen method) open_starplast() (in module spacr.qt.starplast) open_the_test_data() (in module spacr.qt.make_masks_demo) open_tracks() (spacr.qt.screens.curate.CurateScreen method) open_umap() (spacr.qt.screens.model_explanation.InvestigateHitPanel method) open_umap_grid() (spacr.qt.screens.hyperparam.HyperparamPanel method) open_uri() (in module spacr.model_zoo) open_walk_axes() (spacr.qt.screens.hyperparam.HyperparamPanel method) open_workflow() (in module spacr.qt.screens.organism_screen) (spacr.qt.screens.organism_screen.OrganismScreen method) opener_kinds() (in module spacr.qt.help_search) opener_on() (in module spacr.qt.screens.activation) openmp_runtime_is_duplicated() (in module spacr.openmp_guard) operating_points() (in module spacr.classifier_quality) ops_defaults() (in module spacr.ops_settings) ops_page() (in module spacr.qt.screens.mask) ops_settings_for() (in module spacr.qt.ops_stitch_demo) OpticalValue (class in spacr.point_spread) optional_columns (spacr.schema.ObjectTableSchema property) OptionalDependencyCompatibilityError OrbitEngine (class in spacr.qt.widgets.fractal_travel) order() (spacr.qt.widgets.gate_spec.GateSet method) order_items() (in module spacr.curation_queue) order_phrase (spacr.curation_queue.CurationQueue property) order_sensitivity() (in module spacr.annotation_validation) ordered() (in module spacr.object_roles) ordered_columns() (in module spacr.qt.widgets.measurement_scan_panel) (in module spacr.qt.widgets.sweep_runs) ordered_roles() (spacr.measure.FieldTable method) organelle_count() (in module spacr.organelle_types) organelle_counting_is_meaningful() (in module spacr.settings) organelle_index() (in module spacr.object_roles) organelle_keys_to_spawn() (spacr.qt.screens.settings_model.SettingsWidgets method) organelle_label() (in module spacr.object_roles) (in module spacr.qt.widgets.live_preview) organelle_measurement_caveats() (in module spacr.settings) organelle_morphology_now() (in module spacr.qt.screens.settings_model) organelle_number() (in module spacr.organelle_types) organelle_role() (in module spacr.organelle_types) organelle_role_of() (in module spacr.organelle_types) organelle_roles() (in module spacr.organelle_types) organelle_settings() (in module spacr.qt.organelle_modes) organelle_settings_view() (in module spacr.object_roles) organelle_slot_is_active() (in module spacr.organelle_types) organelle_slot_label() (in module spacr.organelle_types) organelle_slots_beyond_the_count() (in module spacr.settings) organelle_slots_offered() (in module spacr.qt.screens.foreign) OrganelleType (class in spacr.organelle_types) OrganismDiagram (class in spacr.qt.widgets.organism_diagram) ORGANISMS (in module spacr.qt.organisms) organisms_for() (in module spacr.uniprot) OrganismScreen (class in spacr.qt.screens.organism_screen) OrientationFinding (class in spacr.barcode_search) oriented() (spacr.barcode_search.BarcodeTable method) orphans() (in module spacr.lineage) OrthoPanel (class in spacr.qt.ortho_view) OrthoView (class in spacr.qt.ortho_view) OrthoViews (class in spacr.layers) other_axes (spacr.ome_zarr.OmeZarrImage property) otsu_instances() (in module spacr.qt.mask_engine) outcomes() (spacr.qt.widgets.measurement_scan_panel.ColumnRegressionPanel method) OutlierError OutlierResult (class in spacr.qt.widgets.outlier_model) outliers() (in module spacr.outlier_filter) OutlierSpec (class in spacr.qt.widgets.outlier_model) OutliersScreen (class in spacr.qt.screens.outliers) outline_image() (in module spacr.qt.annotate_engine) outline_labels() (in module spacr.qt.widgets.plaque_preview) outline_palette_colours() (in module spacr.plot) OutlineCancelled output() (spacr.qt.model_install.PackageInstall method) output_format() (spacr.qt.screens.report.ReportScreen method) overall() (spacr.run_compare.CountDiff method) overdispersion_statistic() (in module spacr.regression_qc) overlap_counts() (in module spacr.timeflows_baseline) overlap_gain() (in module spacr.ops_compose) overlay() (spacr.qt.screens.train_compare.TrainCompareScreen method) overlay_colour() (in module spacr.qt.widgets.plaque_preview) overlay_mask() (in module spacr.qt.mask_engine) (in module spacr.qt.widgets.live_preview) overlay_masks() (in module spacr.qt.widgets.live_preview) overlay_masks_on_images() (in module spacr.plot) overlay_menu() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) overlay_style() (spacr.qt.widgets.plaque_preview.PlaqueOverlayDialog method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) OVERLAY_STYLE_KEY (in module spacr.qt.widgets.plaque_preview) OverlayStyle (class in spacr.qt.widgets.plaque_preview) override() (in module spacr.qt.laptop_mode) override_args (spacr.batch.Job property) overrides (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel property) overrides() (spacr.qt.widgets.aggregation_rules.AggregationRulesDialog method) owned_keys() (spacr.qt.widgets.object_grid_binding.ObjectGridBinding method)

P

p (spacr.regression_qc.RegressionQCContext property) p_axis() (spacr.qt.widgets.fast_plots.VolcanoPlot method) p_column() (in module spacr.figures.panels) p_histogram() (in module spacr.figures.panels) pack_training_data() (in module spacr.qt.widgets.model_share) package_installed() (in module spacr.regression_backends) package_model_root() (in module spacr.model_zoo) PackageChange (class in spacr.updater) PackageInstall (class in spacr.qt.model_install) PackReport (class in spacr.qt.settings_pack) pad_to_same_shape() (in module spacr.utils) page_colour() (in module spacr.qt.theme) page_fill() (spacr.qt.screens.app_screen.AppScreen method) (spacr.qt.widgets.home.HomePage method) page_ground() (in module spacr.volcano_style) page_named() (in module spacr.qt.preferences_navigation) page_separation_failures() (in module spacr.qt.theme) page_separation_report() (in module spacr.qt.theme) page_size (spacr.qt.annotate_engine.AnnotateSettings property) page_size() (in module spacr.figure_style) (spacr.qt.screens.db_browser.DbBrowserScreen method) page_tabs_qss() (in module spacr.qt.theme) pages() (spacr.crop_loader.CropPlan method) paint() (spacr.curation.MaskCuration method) (spacr.layers.LabelsLayer method) (spacr.qt.widgets.image_ruler.ImageRuler method) paint_disk() (in module spacr.qt.mask_engine) paint_field_fade() (in module spacr.qt.widgets.field_fade) paint_line() (in module spacr.qt.mask_engine) paint_panel() (in module spacr.qt.theme) paint_tile() (in module spacr.qt.widgets.tile_chrome) paintEvent() (spacr.qt.layer_viewer.LayerCanvas method) (spacr.qt.ortho_view.OrthoPanel method) (spacr.qt.screens.align.TileLayoutWidget method) (spacr.qt.screens.app_screen.AppScreen method) (spacr.qt.screens.image_scatter.ScatterCanvas method) (spacr.qt.screens.pipeline_graph.GraphCanvas method) (spacr.qt.screens.plate_view.PlateGridWidget method) (spacr.qt.screens.power.PowerCurveView method) (spacr.qt.screens.profiler.CurveCanvas method) (spacr.qt.screensaver.Screensaver method) (spacr.qt.shortcuts.ShortcutOverlay method) (spacr.qt.widgets.activity_spinner.ActivitySpinner method) (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) (spacr.qt.widgets.dock.DockEdge method) (spacr.qt.widgets.dot_link.DotLink method) (spacr.qt.widgets.fold_strip.FoldButton method) (spacr.qt.widgets.height_grip.HeightGrip method) (spacr.qt.widgets.home.HomePage method) (spacr.qt.widgets.loading_screen.LoadingScreen method) (spacr.qt.widgets.provider_marks.ProviderMark method) (spacr.qt.widgets.setup_card.SetupCard method) (spacr.qt.widgets.toggle.Toggle method) (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView method) (spacr.qt.widgets.workflow_diagram.DiagramDialog method) pair() (spacr.agreement.AgreementReport method) pair_images_and_masks() (in module spacr.qt.widgets.model_share) pair_sampling_weights() (in module spacr.timeflows_model) PairAgreement (class in spacr.agreement) paired_read_chunked_processing() (in module spacr.sequencing) PairedFileTableWidget (class in spacr.qt.widgets.file_list) PairingReport (class in spacr.foreign) PairResult (class in spacr.align) pairs() (spacr.ops_layout.WellLayout method) pairs_match() (in module spacr.qt.widgets.model_share) Palette (class in spacr.figures.style) palette_colors() (in module spacr.qt.widgets.ambient) palette_colours() (in module spacr.figure_style) palette_for() (in module spacr.qt.theme) palette_label() (in module spacr.qt.widgets.ambient) palette_name() (spacr.qt.widgets.ambient.AmbientWidget method) palette_note() (in module spacr.qt.widgets.ambient) palettes() (in module spacr.qt.night_themes) palettes_for() (in module spacr.qt.widgets.ambient) pan() (spacr.layers.CanvasLink method) Pane (class in spacr.qt.widgets.collapsible_splitter) pane() (spacr.qt.widgets.collapsible_splitter.CollapsibleSplitter method) pane_alpha() (in module spacr.qt.theme) pane_alpha_floor() (in module spacr.qt.theme) pane_surface() (in module spacr.qt.theme) Panel (class in spacr.figures.panels) (class in spacr.qt.widgets.home) panel() (in module spacr.response_distribution) (spacr.qt.screens.classify.LazyFlowViewSection method) (spacr.qt.widgets.graph_spec.FacetGrid method) (spacr.qt.widgets.trellis_spec.Trellis method) panel_alpha() (in module spacr.qt.theme) panel_axes() (spacr.qt.widgets.graph_builder.GraphCanvas method) panel_letter (spacr.plaque_papers.Word property) panel_letter() (in module spacr.figures.style) panel_names() (in module spacr.regression_qc) panel_qcolor() (in module spacr.qt.theme) panel_settings() (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) PanelNarrative (class in spacr.regression_panels) panels (spacr.qt.comparison_grid.ComparisonGrid property) PanelStyle (class in spacr.regression_panels) PanelUnavailable PanelVerdict (class in spacr.regression_qc) panes() (spacr.qt.widgets.collapsible_splitter.CollapsibleSplitter method) panned() (spacr.layers.Canvas method) Paper (class in spacr.plaque_papers) paper_folder_name() (in module spacr.qt.widgets.plaque_preview) PaperDialog (class in spacr.qt.widgets.plaque_preview) papers_install_message() (in module spacr.qt.widgets.plaque_preview) paragraphs() (in module spacr.qt.terms_i18n) parameter_frame() (spacr.qt.widgets.dose_response.DoseResponseResult method) parameter_rows() (spacr.qt.screens.model_compare.ModelCompareScreen method) parameters (spacr.qt.widgets.dose_response.DoseResponseResult property) parameters() (spacr.qt.widgets.figure_grid.SearchFigureGrid method) (spacr.timeflows_model.CellposeSamFeatures method) ParasiteCountHead (class in spacr.object_classifier) parasites_per_cell() (in module spacr.infection) pareto_front() (spacr.hyperparam.SearchResult method) parked_thread_count() (in module spacr.qt.bridge) parse() (in module spacr.qt.widgets.channel_picker) (in module spacr.qt.widgets.formula) (in module spacr.well_spec) parse_cellpose4_output() (in module spacr.spacr_cellpose) parse_channels() (in module spacr.qt.widgets.cell_montage_view) parse_column() (in module spacr.feature_dict) parse_column_label() (in module spacr.plate_qc) parse_cutoff() (in module spacr.qt.widgets.gate_canvas) parse_field_name() (in module spacr.seg_qc) parse_field_stem() (in module spacr.schema) parse_gz_files() (in module spacr.io) parse_image_type() (in module spacr.qt.annotate_engine) parse_int_token() (in module spacr.schema) parse_list() (in module spacr.settings) parse_object_filters() (in module spacr.qt.mask_engine) parse_object_id() (in module spacr.omero) parse_object_ref() (in module spacr.omero) parse_object_stem() (in module spacr.schema) parse_one() (in module spacr.well_spec) parse_prcf() (in module spacr.schema) parse_prcfo() (in module spacr.schema) parse_reference() (in module spacr.plaque_papers) parse_row_label() (in module spacr.plate_qc) parse_sizes() (in module spacr.qt.widgets.plaque_preview) parse_values() (in module spacr.qt.screens.hyperparam) parse_well() (in module spacr.schema) partial (spacr.batch.QueueResult property) (spacr.portable_paths.RerootReport property) PartialRunError parts_from_path() (in module spacr.dependent_join) passed (spacr.classifier_evaluation.FoldLeakageAudit property) (spacr.classifier_evaluation.LeakageReport property) path (spacr.chaining.ChainedInput property) (spacr.macro.Macro property) (spacr.setting_animations.SettingAnimation property) path() (spacr.qt.widgets.gate_spec.GateSet method) (spacr.qt.widgets.preview_controls.ImageSet method) path_at() (spacr.qt.screens.image_scatter.ImageScatterScreen method) path_for() (in module spacr.gate_library) (spacr.flowview.thumbs.ThumbnailCache method) path_to() (spacr.scorecard.HoldoutSet method) paths (spacr.data_manager.PrunePlan property) paths() (spacr.qt.widgets.file_list.FilePathListWidget method) (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) paths_by_measurements() (in module spacr.qt.annotate_engine) paths_by_metadata() (in module spacr.qt.annotate_engine) pathway_graph() (in module spacr.qt.widgets.sample_project) pathways() (in module spacr.qt.widgets.sample_project) pattern_for_this_machine() (in module spacr.qt.widgets.fractal_travel) pausable() (in module spacr.qt.bridge) pause() (spacr.qt.bridge.PauseGate method) (spacr.qt.widgets.timelapse_movie.FovMovie method) pause_button (spacr.qt.widgets.home.RunningBanner property) paused_for() (spacr.qt.bridge.PauseGate method) PauseGate (class in spacr.qt.bridge) pca() (in module spacr.qt.widgets.pca_model) PCAError PCAPanel (class in spacr.qt.widgets.pca_view) PCAResult (class in spacr.qt.widgets.pca_model) PCAScoresCanvas (class in spacr.qt.widgets.pca_view) PCAScreen (class in spacr.qt.screens.pca) PCASpec (class in spacr.qt.widgets.pca_model) pct (spacr.run_compare.CountRow property) pdf_page_count() (in module spacr.report) peak() (in module spacr.fit_resources) (spacr.attribution.Attribution method) peek() (in module spacr.restart_state) (spacr.qt.crop_thumbs.CropThumbnails method) pen (spacr.qt.roi_tool.RoiPanel property) pending (spacr.flowview.collector.Collector property) (spacr.qt.roi_tool.RoiPen property) pending_batches (spacr.qt.annotate_engine.SaveWorker property) pending_depth() (spacr.qt.widgets.gate_editor.GateCanvas method) pending_edit_sql() (spacr.qt.screens.db_browser.DbBrowserScreen method) pending_items() (in module spacr.curation_queue) pending_jobs() (spacr.qt.job_runner.JobRunner method) pending_suggestions() (in module spacr.suggest) pending_vertices() (spacr.qt.widgets.gate_editor.GateCanvas method) per_class (spacr.active_learning.RoundResult property) per_class_accuracy() (in module spacr.deep_spacr) per_item_seconds (spacr.benchmark.Measurement property) per_object() (in module spacr.qt.widgets.segmentation_views) per_plate (spacr.illumination.IlluminationModel property) perceived_gain() (in module spacr.qt.sound) percent() (spacr.qt.widgets.eliding.ProgressLine method) percent_used (spacr.qt.resource_cleanup.DiskEntry property) percentile_normalize() (spacr.utils.GradCAMGenerator method) (spacr.utils.SaliencyMapGenerator method) PercentilePair (class in spacr.qt.widgets.percentile_pair) perform_levene_test() (in module spacr.sp_stats) (spacr.plot.spacrGraph method) perform_mixed_model() (in module spacr.ml) perform_normality_tests() (in module spacr.sp_stats) (spacr.plot.spacrGraph method) perform_posthoc_tests() (in module spacr.sp_stats) (spacr.plot.spacrGraph method) perform_regression() (in module spacr.ml) perform_statistical_tests() (in module spacr.sp_stats) (in module spacr.utils) (spacr.plot.spacrGraph method) perimeter_position() (spacr.qt.widgets.setup_card.SetupCard method) period() (spacr.qt.widgets.fractal_travel.RegionTour method) (spacr.qt.widgets.setup_card.SetupCard method) permutation_test_explainer() (in module spacr.qt.screens.settings_model) permutation_test_explainer_html() (in module spacr.qt.screens.settings_model) permuted() (in module spacr.annotation_validation) perturbation_escape_map() (in module spacr.qt.widgets.fractal_mandelbrot) phase_correlate() (in module spacr.ops_register) phenotype_centres() (in module spacr.ops_phenotype) phenotype_site_map() (in module spacr.ops_phenotype) photograph_shown() (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) pick() (spacr.layers.LayerStack method) pick_best_model() (in module spacr.utils) pick_color() (spacr.qt.widgets.dna_rain.DnaRainSettingsBar method) pick_colour() (in module spacr.qt.widgets.colour_picker) (in module spacr.qt.widgets.fast_plots) pick_device() (in module spacr.deep_spacr) pick_files() (spacr.qt.widgets.file_list.FilePathListWidget method) pick_folder() (spacr.qt.widgets.file_list.FilePathListWidget method) pick_glm_family_and_link() (in module spacr.ml) pick_wells_for() (spacr.qt.screens.app_screen.AppScreen method) picked_groups() (spacr.qt.widgets.cell_montage_view.CellMontageView method) picked_text() (spacr.qt.screens.train_compare.TrainCompareScreen method) picture() (spacr.qt.widgets.segmentation_views.PictureCanvas method) (spacr.qt.widgets.segmentation_views.SegmentationViews method) picture_contrast() (in module spacr.qt.theme) picture_defaults() (in module spacr.qt.widgets.picture_settings_dialog) picture_dpi() (in module spacr.qt.widgets.picture_export) picture_mode() (spacr.qt.widgets.cell_montage_view.CellMontageView method) picture_name() (spacr.qt.widgets.segmentation_views.PictureCanvas method) (spacr.qt.widgets.segmentation_views.SegmentationViews method) picture_name_of() (in module spacr.qt.widgets.segmentation_views) picture_settings() (spacr.qt.widgets.cell_montage_view.CellMontageView method) PictureCanvas (class in spacr.qt.widgets.segmentation_views) PictureSettingsDialog (class in spacr.qt.widgets.picture_settings_dialog) Piece (class in spacr.cli_download) pin() (spacr.chaining.PinStore method) (spacr.qt.widgets.preview_controls.ImageSetSampler method) pin_all_menu_roles() (spacr.qt.app.MainWindow method) pin_menu_roles() (in module spacr.qt.menus) pin_store() (in module spacr.chaining) pinned() (spacr.chaining.PinStore method) pinned_limits() (spacr.qt.widgets.fast_plots.FastPlot method) pins() (spacr.chaining.PinStore method) PinStore (class in spacr.chaining) pip_available() (in module spacr.updater) pip_command() (in module spacr.qt.model_install) pipeline_order() (in module spacr.projects) PipelineCancelled PipelineDetails (class in spacr.qt.widgets.pipeline_details) PipelineGraph (class in spacr.pipeline_graph) PipelineGraphScreen (class in spacr.qt.screens.pipeline_graph) PipelineWorker (class in spacr.qt.bridge) pivot() (in module spacr.qt.widgets.pivot_spec) PivotError PivotPanel (class in spacr.qt.widgets.pivot_builder) PivotResult (class in spacr.qt.widgets.pivot_spec) PivotSpec (class in spacr.qt.widgets.pivot_spec) PivotTable (class in spacr.qt.widgets.pivot_builder) pixel_at() (spacr.layers.Canvas method) pixel_size() (spacr.qt.screens.foreign.ForeignScreen method) pixel_size_from() (in module spacr.omero) pixel_size_um() (in module spacr.point_spread) PixelReadout (class in spacr.qt.mask_engine) PixelSize (class in spacr.omero) pixmap() (spacr.qt.crop_thumbs.CropThumbnails method) placed (spacr.ops_stitch.StitchedWell property) placeholder_paths() (in module spacr.chaining) Placement (class in spacr.align) (class in spacr.image_stitch) plain_sentence() (in module spacr.qt.widgets.power_design) plain_tooltip() (in module spacr.qt.screens.settings_model) plain_tooltip_for() (spacr.qt.screens.settings_model.SettingsWidgets method) plan (spacr.qt.screens.data_manager.DataManagerScreen property) plan() (in module spacr.batch) (in module spacr.convert) (in module spacr.import_plan) (spacr.qt.screens.align.AlignScreen method) (spacr.qt.screens.align.TileLayoutWidget method) (spacr.qt.screens.convert.ConvertScreen method) (spacr.qt.screens.foreign.ForeignScreen method) (spacr.qt.screens.image_import.ImageImportScreen method) (spacr.qt.widgets.database_set.DatabaseSetWidget method) plan_4d_from_settings() (in module spacr.zstack) plan_annotation() (in module spacr.omero) plan_archive() (in module spacr.data_manager) (spacr.qt.screens.data_manager.DataManagerScreen method) plan_barcode_search() (in module spacr.qt.screens.map_barcodes) plan_canvas() (in module spacr.align) plan_container_extraction() (in module spacr.qt.ingest_preview) plan_crops() (in module spacr.crop_loader) plan_evidence() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) plan_external_masks() (in module spacr.external_masks) plan_folder_extraction() (in module spacr.qt.ingest_preview) plan_from_database() (in module spacr.crop_loader) plan_from_folder() (in module spacr.crop_loader) plan_from_settings() (in module spacr.zstack) plan_guided_step() (in module spacr.qt.widgets.fractal_mandelbrot) plan_import() (in module spacr.foreign) (in module spacr.image_import) plan_install() (in module spacr.qt.ai.cli_install) plan_measure_resume() (in module spacr.resume) plan_mosaic() (in module spacr.image_stitch) plan_prune() (in module spacr.data_manager) (spacr.qt.screens.data_manager.DataManagerScreen method) plan_resume() (in module spacr.resume) plan_summary() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) plan_tag() (in module spacr.omero) plan_text() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) plane() (spacr.qt.widgets.pca_view.PCAScoresCanvas method) plane_features() (spacr.qt.widgets.pca_model.PCAResult method) plane_filename() (in module spacr.omero) plane_paths() (spacr.qt.widgets.preview_controls.ImageSet method) PlaneLayoutConflict PlanePlan (class in spacr.omero) plans() (spacr.qt.widgets.cell_montage_view.CellMontageView method) PlanTableModel (class in spacr.qt.screens.convert) plaque_flow_outputs() (in module spacr.plaque) plaque_inputs() (in module spacr.qt.dnd_handlers) plaque_model_choices() (in module spacr.qt.widgets.plaque_preview) plaque_others() (in module spacr.qt.dnd_handlers) plaque_pass() (in module spacr.qt.widgets.plaque_preview) plaque_rows() (in module spacr.qt.widgets.plaque_preview) plaque_selection_folder() (in module spacr.qt.dnd_handlers) plaque_table_rows() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) PlaqueDropHandler (class in spacr.qt.dnd_handlers) PlaqueModeSwitch (class in spacr.qt.widgets.plaque_preview) PlaqueOverlayDialog (class in spacr.qt.widgets.plaque_preview) PlaquePreviewPanel (class in spacr.qt.widgets.plaque_preview) PlaqueScale (class in spacr.plaque) PlaqueSettingsDialog (class in spacr.qt.widgets.plaque_preview) plate_databases() (in module spacr.plate_measurements) plate_figure_name() (in module spacr.figures.plates) plate_format_for() (in module spacr.schema) plate_format_for_names() (in module spacr.convert) plate_id_notes() (in module spacr.qt.widgets.measurement_scan_panel) plate_layout() (in module spacr.plate_qc) plate_name() (spacr.qt.screens.image_import.ImageImportScreen method) plate_names() (in module spacr.figures.plates) plate_naming() (spacr.qt.screens.convert.ConvertScreen method) plate_of_field() (in module spacr.illumination) plate_ramp() (in module spacr.figures.plates) plate_reports() (in module spacr.qt.widgets.dose_response) plate_shape() (in module spacr.qt.widgets.plate_layout) plate_templates() (in module spacr.qt.widgets.plate_layout) plate_token() (in module spacr.omero) PlateDatabase (class in spacr.plate_measurements) PlateDesign (class in spacr.qt.widgets.plate_layout) PlateGridWidget (class in spacr.qt.screens.plate_view) PlateMapPicker (class in spacr.qt.widgets.plate_map_picker) PlateMerge (class in spacr.plate_measurements) PlateObject (class in spacr.ops_objects) PlateQueue (class in spacr.qt.plate_queue) PlateQueueDropHandler (class in spacr.qt.dnd_handlers) PlateReport (class in spacr.qt.widgets.dose_response) plates (spacr.run_compare.CountDiff property) (spacr.run_compare.RunCounts property) (spacr.seg_qc.QCDigest property) plates() (in module spacr.crop_loader) plates_in() (in module spacr.plate_qc)

PlateSpec (class in spacr.qt.widgets.dose_response) PlateTemplate (class in spacr.qt.widgets.plate_layout) PlateViewScreen (class in spacr.qt.screens.plate_view) platform_can_do_opengl() (in module spacr.qt.widgets.fractal_travel) platform_family() (in module spacr.qt.ai.providers) play() (spacr.qt.sound.SoundEngine method) (spacr.qt.widgets.timelapse_movie.FovMovie method) player() (spacr.qt.sound.SoundEngine method) playing_moment() (in module spacr.qt.resonance) plot() (in module spacr.gene_measurement_compare) plot_activation_grid() (spacr.attribution.AttributionMapGenerator method) (spacr.utils.GradCAMGenerator method) (spacr.utils.SaliencyMapGenerator method) plot_arrays() (in module spacr.plot) plot_barcode_qc() (in module spacr.sequencing_qc) plot_cellpose4_output() (in module spacr.plot) plot_cellpose_batch() (in module spacr.submodules) plot_clusters() (in module spacr.utils) plot_clusters_grid() (in module spacr.utils) plot_comparison_results() (in module spacr.plot) plot_confusion_matrix() (in module spacr.sim) plot_correlation_matrix() (in module spacr.sim) plot_curves() (in module spacr.train_compare) plot_data() (in module spacr.timelapse) plot_data_from_csv() (in module spacr.plot) plot_data_from_db() (in module spacr.plot) plot_design_diagnostics() (in module spacr.regression_diagnostics) plot_design_identifiability() (in module spacr.regression_diagnostics) plot_embedding() (in module spacr.utils) plot_feature_importance() (in module spacr.plot) (in module spacr.sim) plot_gene_heatmaps() (in module spacr.toxo) plot_gene_phenotypes() (in module spacr.toxo) plot_grid() (in module spacr.utils) plot_guide_permutation_volcano() (in module spacr.guide_permutation) plot_histogram() (in module spacr.plot) (in module spacr.sim) plot_image() (in module spacr.utils) plot_image_grid() (in module spacr.plot) plot_image_mask_overlay() (in module spacr.plot) plot_image_mask_overlay_magenta_outlines() (in module spacr.plot) plot_images_and_arrays() (in module spacr.plot) plot_images_by_cluster() (in module spacr.utils) plot_inference_diagnostics() (in module spacr.regression_diagnostics) plot_lorenz_curves() (in module spacr.plot) plot_masks() (in module spacr.plot) plot_merged() (in module spacr.plot) plot_object_outlines() (in module spacr.plot) plot_organelle_output() (in module spacr.plot) plot_partial_dependences() (in module spacr.sim) plot_permutation() (in module spacr.plot) plot_plates() (in module spacr.plot) plot_proportion_stacked_bars() (in module spacr.plot) plot_region() (in module spacr.plot) plot_residual_by_position() (in module spacr.permutation_qc) plot_residual_diagnostics() (in module spacr.regression_diagnostics) plot_resize() (in module spacr.plot) plot_roc_pr() (in module spacr.sim) plot_simulations() (in module spacr.sim) plot_state() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) plot_summary() (spacr.qt.screens.tabulate.TabulateScreen method) plot_threshold_sweep() (in module spacr.sequencing_qc) plot_umap_images() (in module spacr.utils) PlotSpec (class in spacr.qt.widgets.grouped_plot) plottable (spacr.qt.screens.image_scatter.ScatterCanvas property) plottable_columns() (in module spacr.qt.widgets.graph_spec) plugin_apps() (in module spacr.plugins) plugin_from_mapping() (in module spacr.plugins) PluginDiagnostic (class in spacr.plugins) png_bytes() (spacr.io.LazyCropPNG method) png_crop_type() (in module spacr.filters) png_dims_to_channel_mapping() (in module spacr.crops) png_list_frame() (in module spacr.annotation_dataset) png_view() (in module spacr.crops) PngCropSource (class in spacr.crops) point_colormap() (spacr.qt.widgets.gate_editor.GateCanvas method) (spacr.qt.widgets.graph_builder.GraphCanvas method) point_details() (in module spacr.volcano_style) point_keys() (spacr.qt.widgets.umap_explorer.ImageUmapExplorer method) point_localizations() (in module spacr.volcano_style) point_position() (spacr.qt.screens.image_scatter.ScatterCanvas method) point_reason() (spacr.qt.widgets.fast_plots.FastPlot method) point_src_at() (spacr.qt.screens.app_screen.AppScreen method) Pointer (class in spacr.qt.widgets.fractal_travel) pointing_game() (in module spacr.attribution) pointing_game_rate() (in module spacr.attribution) points() (spacr.qt.screens.profiler.CurveCanvas method) (spacr.qt.widgets.training_monitor.TrainingMonitor method) points_frame() (spacr.qt.widgets.control_chart.ControlChartResult method) (spacr.qt.widgets.dose_response.DoseResponseResult method) points_in_polygon() (in module spacr.qt.widgets.gate_spec) PointsLayer (class in spacr.layers) policed_settings() (in module spacr.refit) policy() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) poll() (spacr.qt.ai.pty_sign_in.PtySession method) PolygonGate (class in spacr.qt.widgets.gate_spec) pool_across_plates() (in module spacr.qt.widgets.dose_response) pool_frame() (in module spacr.qt.widgets.dose_response) pool_stems() (in module spacr.qt.make_masks_datasets) PooledFit (class in spacr.qt.widgets.dose_response) popover (spacr.qt.widgets.dna_rain_settings.DnaSettingsButton property) populate_channel_combo() (in module spacr.qt.widgets.preview_controls) populate_db_from_map() (in module spacr.convert) populate_fov_combo() (in module spacr.qt.widgets.preview_controls) populate_from_column() (spacr.qt.widgets.class_editor.ClassEditorWidget method) population() (spacr.qt.widgets.gate_editor.GateCanvas method) (spacr.qt.widgets.gate_spec.GateSet method) popup() (spacr.qt.help_search.HelpSearchField method) Port (class in spacr.ports) port() (spacr.ports.ModulePorts method) port_problems() (in module spacr.ports) ports_for_kinds() (in module spacr.chaining) position (spacr.qt.widgets.setup_card.SetupCard property) position() (spacr.ops_layout.WellLayout method) position_effect() (in module spacr.permutation_qc) position_effects() (in module spacr.sequencing_qc) position_intensity_slope() (in module spacr.illumination) positional (spacr.schema.FieldID property) positions() (spacr.ops_layout.WellLayout method) positive_share() (spacr.regression_annotation.Prepared method) post_active() (in module spacr.qt.detect_chain) post_regression_analysis() (in module spacr.submodules) posterior() (in module spacr.guide_attribution) posterior_for_prior() (in module spacr.annotation_power) power (spacr.foreign.ColumnMap property) power_curve() (in module spacr.qt.widgets.power_design) power_default_settings() (in module spacr.qt.screens.power) power_law_dist_gen() (in module spacr.sim) PowerCurveView (class in spacr.qt.screens.power) PowerFit (class in spacr.power_model) PowerFitError PowerScreen (class in spacr.qt.screens.power) PowerSimulationError prc (spacr.schema.FieldID property) prc() (spacr.omero.WellPosition method) prcf (spacr.schema.FieldID property) (spacr.schema.ObjectID property) prcfo (spacr.schema.ObjectID property) pre_active() (in module spacr.qt.detect_chain) precision (spacr.scorecard.Match property) predict() (in module spacr.profiler) (spacr.object_classifier.ParasiteCountHead method) (spacr.profiler.FittedLinear method) (spacr.qt.widgets.dose_response.DoseResponseResult method) predict_augmented() (in module spacr.inference_augmentation) predict_pair() (in module spacr.timeflows_model) predict_pair.starts() (in module spacr.timeflows_model) predict_probabilities() (in module spacr.active_learning) preference_entries() (in module spacr.qt.help_index) PreferencesDialog (class in spacr.qt.preferences) preferred_measure() (in module spacr.resource_log) preferred_motion() (in module spacr.qt.widgets.ambient) preferred_suffix() (in module spacr.qt.widgets.picture_export) Preflight (class in spacr.guide_attribution) preflight() (in module spacr.guide_attribution) prepare() (in module spacr.qt.detect_chain) (in module spacr.regression_annotation) prepare_batch_for_segmentation() (in module spacr.utils) prepare_cellpose_dataset() (in module spacr.io) prepare_chain() (in module spacr.psf_pipeline) prepare_data() (in module spacr.qt.widgets.graph_spec) prepare_external_masks() (in module spacr.external_masks) prepare_formula() (in module spacr.ml) prepare_illumination_correction() (in module spacr.illumination) prepare_illumination_model() (in module spacr.illumination) prepare_long_gene_data() (in module spacr.guide_permutation) prepare_long_guide_data() (in module spacr.guide_permutation) prepare_measurement_psf() (in module spacr.psf_measurement) prepare_model_data() (in module spacr.power_model) prepare_psf() (in module spacr.psf_pipeline) prepare_segmentation_illumination() (in module spacr.illumination) Prepared (class in spacr.regression_annotation) PreparedIllumination (class in spacr.illumination) preprocess_data() (in module spacr.utils) (spacr.plot.spacrGraph method) preprocess_generate_masks() (in module spacr.core) preprocess_generate_masks_timelapse() (in module spacr.core) preprocess_image() (in module spacr.utils) preprocess_img_data() (in module spacr.io) preprocess_pathogen_data() (in module spacr.timelapse) preprocessing_hooks() (in module spacr.measure_hooks) PreprocessingContext (class in spacr.measure_hooks) present (spacr.qt.widgets.measurement_scan_panel.AttachedDatabase property) present() (in module spacr.localisation) present_scrim_ceiling() (in module spacr.qt.theme) preserve_widget_qss_overlay() (in module spacr.qt.theme) preset_for() (in module spacr.organelle_types) press() (spacr.qt.counting_tool.CountingTool method) (spacr.qt.curation_tool.BrushTool method) (spacr.qt.layer_viewer.CanvasTool method) (spacr.qt.roi_tool.RoiPen method) pretty_print_settings() (in module spacr.utils) prevalence (spacr.classifier_quality.Confusion property) preview() (spacr.qt.screens.convert.ConvertScreen method) (spacr.qt.screens.foreign.ForeignScreen method) (spacr.qt.sound.SoundEngine method) (spacr.qt.widgets.save_figure_dialog.SaveFigureDialog method) preview_app_keys() (in module spacr.qt.preview_registry) preview_blocked_reason() (spacr.qt.widgets.preview_contract.LivePreviewContract method) preview_captions() (spacr.qt.screens.model_compare.ModelCompareScreen method) preview_cellpose_model() (in module spacr.qt.widgets.preview_contract) preview_columns() (spacr.qt.screens.db_browser.DbBrowserScreen method) preview_failure_message() (in module spacr.qt.widgets.preview_contract) preview_field() (in module spacr.host_pathogen_preview) preview_fields() (in module spacr.host_pathogen_preview) preview_row_count() (spacr.qt.screens.convert.ConvertScreen method) preview_rows() (spacr.qt.screens.db_browser.DbBrowserScreen method) preview_running() (spacr.qt.widgets.host_pathogen_preview.HostPathogenPreviewPanel method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) (spacr.qt.widgets.preview_contract.LivePreviewContract method) preview_selected_well() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) preview_size() (spacr.qt.screens.model_zoo.ModelZooScreen method) preview_sizes() (spacr.qt.screens.model_compare.ModelCompareScreen method) preview_sound() (in module spacr.qt.sound) preview_stale() (spacr.qt.widgets.preview_contract.LivePreviewContract method) preview_status() (spacr.qt.widgets.preview_contract.LivePreviewContract method) preview_targets() (spacr.qt.screens.convert.ConvertScreen method) preview_token() (spacr.qt.widgets.preview_contract.LivePreviewContract method) preview_value() (spacr.qt.screens.convert.ConvertScreen method) PreviewModel (class in spacr.qt.screens.db_browser) PreviewRequest (class in spacr.qt.widgets.live_preview) PreviewScaleControl (class in spacr.qt.widgets.preview_scale) PreviewScaler (class in spacr.qt.widgets.preview_scale) PreviewSpec (class in spacr.qt.preview_registry) previous() (spacr.qt.widgets.setup_slides.SetupSlides method) previous_field() (spacr.qt.widgets.qc_field_browser.QCFieldBrowser method) previous_of() (spacr.pipeline_graph.ModuleGraph method) primary_secondary_report() (in module spacr.qt.mask_engine) primary_setting() (in module spacr.organelle_types) PrimaryMaskSelector (class in spacr.qt.widgets.primary_mask_selector) PrimaryMaskSource (class in spacr.qt.secondary_masks) PrimarySecondaryReport (class in spacr.qt.mask_engine) prime() (in module spacr.qt.path_probe) (spacr.qt.crop_thumbs.CropThumbnails method) print_mask_and_flows() (in module spacr.plot) print_progress() (in module spacr.utils) print_ready() (in module spacr.plot) PrismGate (class in spacr.qt.widgets.gate_spec) probabilities_from_logits() (in module spacr.active_learning) probe() (spacr.qt.widgets.column_picker.SchemaReader method) Problem (class in spacr.batch) (class in spacr.validate) problem() (spacr.methods_export.Verification method) problem_text() (spacr.qt.screens.train_compare.TrainCompareScreen method) problems (spacr.crashreport.CrashReport property) problems() (spacr.image_import.ImportPlan method) (spacr.measure.FieldTable method) (spacr.qt.screens.image_import.ImageImportScreen method) (spacr.qt.widgets.measure_input_table.MeasureInputTable method) (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) problems_text() (spacr.qt.screens.batch.BatchScreen method) process_chunk() (in module spacr.sequencing) process_environment() (in module spacr._starplast) process_instruction() (in module spacr.io) process_mask_file_adjust_cell() (in module spacr.utils) process_masks() (in module spacr.utils) process_meassure_crop_results() (in module spacr.measure) process_measure_crop_results() (in module spacr.measure) process_model_coefficients() (in module spacr.ml) process_non_tif_non_2D_images() (in module spacr.io) process_reads() (in module spacr.ml) process_rss() (in module spacr.qt.resource_cleanup) process_scores() (in module spacr.ml) process_started_at() (in module spacr.qt.timing) process_vision_results() (in module spacr.utils) processing_requested() (in module spacr.psf_pipeline) ProcessingCancelled producers_of() (in module spacr.ports) producing_modules() (in module spacr.projects) Profile (class in spacr.profiler) profile() (in module spacr.profiler) (spacr.qt.screens.distributed_jobs.ExecutionProfileDialog method) profile_by() (in module spacr.profiler) ProfilerScreen (class in spacr.qt.screens.profiler) ProfileStore (class in spacr.remote_execution) Progress (class in spacr.batch) ProgressLine (class in spacr.qt.widgets.eliding) project (spacr.qt.screens.data_manager.DataManagerScreen property) project() (in module spacr.zstack) (spacr.qt.widgets.gate_spec.ViewGate method) project_labels() (in module spacr.zstack) project_path() (in module spacr.qt.screens.regression) project_points() (in module spacr.qt.widgets.umap_search_viewer) project_root() (in module spacr.ports) project_root_of() (in module spacr.chaining) ProjectBrowserScreen (class in spacr.qt.screens.project_browser) ProjectFolderDropHandler (class in spacr.qt.dnd_handlers) ProjectRootsDropHandler (class in spacr.qt.dnd_handlers) ProjectSummary (class in spacr.projects) ProjectUsage (class in spacr.data_manager) promote() (spacr.qt.screens.model_explanation.InvestigateHitPanel method) promote_calls() (in module spacr.hit_attribution) promote_hit_calls() (in module spacr.hit_attribution) prompt() (spacr.qt.screens.methods_export.MethodsExportScreen method) propagate() (in module spacr.qt.cpu_modes) (in module spacr.sudoku) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) propagate_settings() (spacr.qt.screens.hyperparam.UmapSearchSettingsDialog method) (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) PropagateResult (class in spacr.qt.mask_engine) property_needs_intensity() (in module spacr.qt.mask_engine) PropertyInfo (class in spacr.feature_dict) proportion_mixed_model() (in module spacr.plot) proportion_test_by_unit() (in module spacr.plot) proportions_per_unit() (in module spacr.plot) Proposal (class in spacr.regex_infer) proposal() (spacr.qt.screens.map_barcodes.BarcodeSearchPanel method) proposal_columns() (spacr.qt.screens.image_import.ImageImportScreen method) proposal_row_count() (spacr.qt.screens.image_import.ImageImportScreen method) proposal_value() (spacr.qt.screens.image_import.ImageImportScreen method) ProposalModel (class in spacr.qt.screens.image_import) ProposalPage (class in spacr.qt.widgets.settings_advisor_dialog) propose() (in module spacr.regex_infer) propose_from_the_names() (spacr.qt.widgets.import_workbench.ImportWorkbench method) propose_map_barcodes_settings() (in module spacr.barcode_search) proposed (spacr.ops_stitch.StitchedWell property) proposed_changes() (spacr.qt.screens.map_barcodes.BarcodeSearchPanel method) ProposedMapping (class in spacr.barcode_search) protected (spacr.updater.PackageChange property) protected_changes (spacr.updater.DryRun property) protected_moves (spacr.updater.DryRun property) provenance() (in module spacr.qt.cpu_modes) (in module spacr.qt.detect_chain) (in module spacr.qt.organelle_modes) (spacr.point_spread.PSF method) (spacr.psf_pipeline.PSFPlan method) (spacr.qt.secondary_masks.PrimaryMaskSource method) provenance_known (spacr.model_zoo.ModelEntry property) provenance_message() (spacr.qt.screens.methods_export.MethodsExportScreen method) provider_args() (in module spacr.qt.ai.settings) provider_names() (in module spacr.qt.help_index) provider_status() (spacr.qt.widgets.setup_slides.SetupSlides static method) ProviderFailed ProviderMark (class in spacr.qt.widgets.provider_marks) providers() (in module spacr.workspace) prune() (in module spacr.data_manager) prune_for_type() (in module spacr.refit) prune_job_pairs() (in module spacr.qt.bridge) prune_parked_threads() (in module spacr.qt.bridge) PruneAborted PruneCandidate (class in spacr.data_manager) PruneIncomplete PrunePlan (class in spacr.data_manager) PruneResult (class in spacr.data_manager) PruneSkip (class in spacr.data_manager) PSF (class in spacr.point_spread) PSFPlan (class in spacr.psf_pipeline) PSFResult (class in spacr.point_spread) pty_available() (in module spacr.qt.ai.pty_sign_in) PtySession (class in spacr.qt.ai.pty_sign_in) public_report() (in module spacr.qt.ai.issue_report) publication_opener() (in module spacr.qt.screens.regression) publish() (in module spacr.figure_sink) (spacr.qt.widgets.gate_editor.GateEditorPanel method) publish_family() (spacr.qt.screens.lineage.LineageScreen method) publish_file() (in module spacr.figure_sink) publish_filter() (spacr.qt.linked_selection.LinkedView method) publish_model() (in module spacr.model_zoo) publish_selection() (spacr.qt.linked_selection.LinkedView method) published_archives() (in module spacr.screen_data) purity_by_guide() (in module spacr.annotation_umap_qc) PurityScatter (class in spacr.qt.widgets.annotation_umap_tab) push() (spacr.qt.mask_engine.MaskHistory method) push_recent_source() (in module spacr.qt.prefs) put() (spacr.utils.Cache method) put_event_nowait() (in module spacr.flowview.feeder) put_on_path() (in module spacr.qt.ai.cli_install) put_the_assay_example_in_place() (in module spacr.qt.assay_examples) PValueHistogram (class in spacr.qt.widgets.fast_plots) PYPI_PACKAGE (in module spacr._starplast) pyqtgraph_ready() (in module spacr.figures.scene) python_supported() (in module spacr.gpu_reduce)

Q

q_colour() (spacr.qt.widgets.fast_plots.VolcanoPlot method) q_column() (in module spacr.figures.panels) q_mark() (spacr.qt.widgets.fast_plots.VolcanoPlot method) qc_banner() (in module spacr.qt.prerun) qc_mode() (in module spacr.seg_qc) qc_roots() (in module spacr.seg_qc) qc_score (spacr.model_zoo.BenchmarkResult property) qc_verdicts() (in module spacr.trial_metrics) QCCard (class in spacr.qt.widgets.qc_summary) QCDashboardScreen (class in spacr.qt.screens.qc_dashboard) QCDigest (class in spacr.seg_qc) QCFieldBrowser (class in spacr.qt.widgets.qc_field_browser) QCFieldImage (class in spacr.qt.widgets.qc_field_browser) QCFieldTarget (class in spacr.qt.widgets.qc_field_browser) QCFieldVerdict (class in spacr.qt.widgets.qc_field_browser) QCPanelResult (class in spacr.regression_qc) qq_plot() (in module spacr.figures.panels) QQPlot (class in spacr.qt.widgets.fast_plots) qt_application() (in module spacr.figures.fast_render) QtGui_QListWidgetItem_helper() (in module spacr.qt.screens.app_screen) QtLogHandler (class in spacr.qt.logging_util) quality_policy() (in module spacr.image_quality) quality_report() (in module spacr.annotation_power) quantify_candidate_enrichment() (in module spacr.hit_attribution) quantify_hit_enrichment() (in module spacr.hit_attribution) quarantine_dir_for() (in module spacr.qc_quarantine) quarantine_field() (in module spacr.qc_quarantine) quarantine_record_path() (in module spacr.qc_quarantine) QuarantineError QuasiBinomial (class in spacr.ml)

query() (spacr.qt.settings_search.SettingsSearchBar method) Question (class in spacr.settings_advisor) question_at() (spacr.qt.widgets.object_settings_grid.ObjectSettingsModel method) question_count() (spacr.qt.screens.image_import.ImageImportScreen method) questions() (in module spacr.object_settings_table) (in module spacr.qt.setup_screen) (spacr.qt.screens.image_import.ImageImportScreen method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsGrid method) questions_for() (in module spacr.settings_advisor) QuestionsPage (class in spacr.qt.widgets.settings_advisor_dialog) Queue (class in spacr.batch) queue() (spacr.qt.screens.batch.BatchScreen method) (spacr.qt.screens.queue.QueueScreen method) queue_finished (spacr.qt.widgets.measurement_scan_panel.ColumnRegressionPanel attribute) queue_items() (spacr.qt.widgets.home.QueuedPanel method) queue_path() (spacr.qt.screens.batch.BatchScreen method) queue_progress (spacr.qt.widgets.measurement_scan_panel.ColumnRegressionPanel attribute) queue_rows() (in module spacr.active_learning) QueueCancelled queued_jobs() (spacr.qt.screens.db_browser.DbBrowserScreen method) QueuedPanel (class in spacr.qt.widgets.home) QueueError QueueItem (class in spacr.curation_queue) (class in spacr.qt.plate_queue) QueueLayout (class in spacr.curation_queue) QueueResult (class in spacr.batch) QueueScreen (class in spacr.qt.screens.queue) QueueSummary (class in spacr.curation_queue) quote_ident() (in module spacr.qt.screens.db_browser) quote_path() (in module spacr.qt.ai.providers) quote_tail() (in module spacr.qt.ai.cli_install)

R

radar_frame() (spacr.qt.widgets.fast_plots.FastPlot method) raise_hits_tab() (in module spacr.qt.screens.regression) raise_if_strict() (in module spacr.errors) raise_if_worse_than() (spacr.errors.RunLedger method) raise_layer() (spacr.layers.LayerStack method) raise_section() (spacr.qt.widgets.console_panel.ConsolePanel method) ram_resident() (spacr.qt.widgets.figure_queue.FigureQueue method) ran (spacr.projects.ModuleState property) (spacr.projects.ProjectSummary property) random_cmap() (in module spacr.plot) random_color() (spacr.qt.widgets.dna_rain.DnaRainSettingsBar method) random_colors() (spacr.qt.widgets.dna_rain.DnaRainWidget method) random_forest_feature_importance() (in module spacr.utils) random_hue_color() (in module spacr.qt.widgets.dna_rain) random_outline_colour() (in module spacr.qt.widgets.live_preview) random_search() (in module spacr.hyperparam) random_state() (in module spacr.runctx) (spacr.runctx.RunContext method) randomization_sanity_check() (in module spacr.attribution) range_filters() (spacr.qt.widgets.gate_spec.BoxGate method) (spacr.qt.widgets.gate_spec.CylinderGate method) (spacr.qt.widgets.gate_spec.Gate method) (spacr.qt.widgets.gate_spec.PrismGate method) (spacr.qt.widgets.gate_spec.RectGate method) (spacr.qt.widgets.gate_spec.ThresholdGate method) RangeFilter (class in spacr.selection) rank() (in module spacr.model_zoo) rank_aggregate() (in module spacr.rra) rank_by_uncertainty() (in module spacr.active_learning) rank_confusions() (in module spacr.confusion) rank_delta (spacr.run_compare.HitChange property) rank_feature_importance() (in module spacr.surrogate) rank_features() (in module spacr.qt.widgets.feature_rank) rank_groups() (in module spacr.model_zoo) rank_now() (spacr.qt.widgets.feature_explorer.FeatureExplorerPanel method) rank_trials() (in module spacr.parameter_sweep) ranked() (spacr.hyperparam.SearchResult method) ranked_frame() (spacr.qt.widgets.fast_plots.FastPlot method) ranked_inputs() (spacr.qt.screens.profiler.ProfilerScreen method) ranking() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) ranking_frame() (spacr.qt.screens.feature_explorer.FeatureExplorerScreen method) ranking_score (spacr.regression_qc.RegressionQCContext property) rapids_available() (in module spacr.gpu_reduce) raster_pixels() (spacr.qt.widgets.fast_plots.FastPlot method) rbeta_mean_variance() (in module spacr.power_simulate) rc() (in module spacr.figures.style) rc_params() (in module spacr.figure_style) rdirichlet_stable() (in module spacr.power_simulate) reach_from_diameter() (in module spacr.bystanders) read() (spacr.curation.CurationLog class method) (spacr.io.LazyCropPNG method) (spacr.ome_zarr.OmeZarrImage method) (spacr.qt.ai.pty_sign_in.PtySession method) (spacr.qt.widgets.home.RecentRunsPanel method) (spacr.qt.widgets.home.TotalsPanel method) read_a_run (spacr.settings_advisor.Reading property) read_and_plot__vision_results() (in module spacr.plot) read_annotation_overrides() (in module spacr.plaque_papers) read_axes_inside() (in module spacr.image_import) read_beside() (spacr.curation.CurationLog class method) read_classification_image() (in module spacr.classification_pixels) read_coordinates() (in module spacr.align) read_credits() (in module spacr.qt.space) read_crop_folder_marker() (in module spacr.crops) read_crop_png() (in module spacr.crops) read_curation() (in module spacr.qt.mask_engine) read_dashboard() (in module spacr.qt.widgets.qc_summary) read_database() (in module spacr.tabular) read_db_crop_format() (in module spacr.crops) read_digest() (in module spacr.seg_qc) read_frames() (in module spacr.qt.widgets.animation_zoom) read_hits() (in module spacr.run_compare) read_identity() (in module spacr.filters) read_image() (in module spacr.napari_bridge) read_image_rgb() (in module spacr.image_colors) read_inside() (spacr.qt.screens.image_import.ImageImportScreen method) read_label_mask() (in module spacr.qt.widgets.model_share) read_legends() (in module spacr.plaque_papers) read_log() (in module spacr.resource_log) read_macro() (in module spacr.macro) read_map() (in module spacr.convert) read_mask_window() (spacr.crops.MergedField method) read_measurements() (in module spacr.foreign) read_merged() (in module spacr.multi_database) read_merged_plane_layout() (in module spacr.crops) read_model_card() (in module spacr.deep_spacr) read_npy_header() (in module spacr.resume) read_object_tables() (in module spacr.lineage) read_ome_zarr() (in module spacr.ome_zarr) read_ome_zarr_array() (in module spacr.ome_zarr) read_pack() (in module spacr.qt.settings_pack) read_plane_count() (in module spacr.qt.widgets.motility_preview) read_plot_model_stats() (in module spacr.io) read_primary_source() (in module spacr.qt.secondary_masks) read_profile() (in module spacr.install_profile) read_recorded_settings() (in module spacr.resume) read_recrop_manifest() (in module spacr.qt.mask_engine) read_releases() (spacr.qt.widgets.home.NewsPanel static method) read_run_log() (in module spacr.runctx) read_run_resources() (in module spacr.runctx) read_run_status() (in module spacr.errors) read_run_tables() (in module spacr.qt.widgets.regression_results) read_sampled() (in module spacr.filters) read_schema() (in module spacr.qt.widgets.column_picker) read_scorecard() (in module spacr.seg_qc) read_scorecard_csv() (in module spacr.scorecard) read_seg_bundle() (in module spacr.qt.mask_engine) read_settings_history() (in module spacr.io) read_simulations_table() (in module spacr.sim) read_sound_settings() (in module spacr.qt.sound) read_stage_positions() (in module spacr.image_stitch) read_status() (in module spacr.curation_queue) read_table() (in module spacr.ops_store) (in module spacr.qt.screens.graph_builder) (in module spacr.qt.widgets.column_picker) (in module spacr.tabular) read_the_counts (spacr.settings_advisor.Reading property) read_the_counts() (in module spacr.settings_advisor) read_the_last_run() (in module spacr.settings_advisor) read_the_response (spacr.settings_advisor.Reading property) read_the_response() (in module spacr.settings_advisor) read_the_screen() (in module spacr.settings_advisor) read_wav() (in module spacr.qt.sound_synth) read_wav_mono() (in module spacr.qt.resonance) read_well_guide_fractions() (in module spacr.cell_montage) read_window() (spacr.crops.MergedField method) read_words() (in module spacr.plaque_papers) readable (spacr.align.Tile property) (spacr.convert.SourceImage property) readable() (in module spacr.fit_resources) (spacr.io.LazyCropPNG method) readable_group() (in module spacr.regression_annotation) reader_available() (in module spacr.convert) reader_problem() (in module spacr.plaque_papers) reader_requirement() (in module spacr.convert) ReaderNeedsInstall Readiness (class in spacr.ops_store) (class in spacr.ports) Reading (class in spacr.settings_advisor) ReadOnlyDb (class in spacr.qt.screens.db_browser) ReadRow (class in spacr.qt.widgets.read_view) reads (spacr.barcode_search.BarcodeSearchReport property) reads_per_well() (in module spacr.sequencing_qc) reads_retained_at() (spacr.sequencing_qc.WellFractions method) reads_rows() (in module spacr.ops_sample) ReadView (class in spacr.qt.widgets.read_view) reanchor_example_paths() (spacr.qt.screens.app_screen.AppScreen static method) reapply_regex() (spacr.qt.widgets.measure_input_table.MeasureInputTable method) reason (spacr.cancellation.CancellationToken property) (spacr.chaining.DropResolution property) (spacr.ports.Readiness property) reason() (spacr.confusion.ConfusionCell method) (spacr.figures.scene.SceneReport method) (spacr.qt.widgets.annotation_strategy_panel.AnnotationStrategyPanel method) (spacr.qt.widgets.cell_montage_view.CellMontageView method) reason_for() (in module spacr.qt.maturity) rebalance() (spacr.qt.widgets.collapsible_splitter.CollapsibleSplitter method) rebased_orbit() (in module spacr.qt.widgets.fractal_mandelbrot) rebuild_app_screen() (spacr.qt.app.MainWindow method) recall (spacr.scorecard.Match property) recent_runs() (in module spacr.run_journal) RecentRunsPanel (class in spacr.qt.widgets.home) Recipe (class in spacr.qt.recipes) RecipeDialog (class in spacr.qt.recipes) recipes() (spacr.qt.recipes.RecipeDialog method) recipes_dir() (in module spacr.qt.recipes) Reclaim (class in spacr.qt.resource_cleanup) recommend() (in module spacr.run_recommendations) recommend_target_layers() (in module spacr.utils) recommend_threshold() (in module spacr.sequencing_qc) recommend_workers() (in module spacr.benchmark) Recommendation (class in spacr.benchmark) (class in spacr.run_recommendations) recommended_for() (in module spacr.qt.memory_budget) recommended_layer() (in module spacr.attribution) recommended_workers() (in module spacr.parameter_sweep) recompute() (spacr.qt.screens.control_chart.ControlChartScreen method) (spacr.qt.screens.plate_view.PlateViewScreen method) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) (spacr.qt.widgets.pca_view.PCAPanel method) (spacr.qt.widgets.pivot_builder.PivotPanel method) reconcile_duplicates() (in module spacr.merge_tables) reconcile_merged_mask_dims() (in module spacr.crops) record_agreement() (in module spacr.qt.terms) record_curation() (in module spacr.qt.mask_engine) record_decision() (in module spacr.multi_database) record_diagnostic() (in module spacr.plugins) record_failure() (spacr.errors.RunLedger method) record_input() (spacr.run_journal.Run method) record_labels() (in module spacr.active_learning) record_model() (spacr.run_journal.Run method) record_output() (spacr.run_journal.Run method) record_round() (in module spacr.active_learning) record_run() (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) record_stage() (in module spacr.fit_resources) record_state() (in module spacr.curation_queue) record_success() (spacr.errors.RunLedger method) record_warning() (spacr.run_journal.Run method) Recording (class in spacr.macro) Recrop (class in spacr.qt.mask_engine) recrop() (spacr.qt.screens.make_masks.MakeMasksScreen method) recrop_archive_dir() (in module spacr.qt.mask_engine) recrop_box() (in module spacr.qt.mask_engine) recrop_child_name() (in module spacr.qt.mask_engine) RecropRefused RectGate (class in spacr.qt.widgets.gate_spec) rects_overlap() (in module spacr.qt.imagery) recycled_labels() (in module spacr.timeflows_qc) redact_identity() (in module spacr.qt.ai.issue_report) redact_secrets() (in module spacr.qt.ai.issue_report) redacted() (spacr.omero.OmeroConnection method) redo() (spacr.qt.mask_engine.MaskHistory method) redraw() (spacr.qt.widgets.fast_plots.ControlSeparation method) (spacr.qt.widgets.fast_plots.GroupedPlot method) (spacr.qt.widgets.fast_plots.GuideAgreementPlot method) (spacr.qt.widgets.fast_plots.VolcanoPlot method) redraw_umap_figure() (in module spacr.qt.widgets.umap_figure_settings) reduce_dimensions() (in module spacr.merge_tables) reduce_to_components() (spacr.qt.screens.gate_editor.GateEditorScreen method) reducer_hyperparameter_search() (in module spacr.core) reduction_and_clustering() (in module spacr.utils) ReductionError Reference (class in spacr.gene_tile) reference_line() (in module spacr.figures.style) reference_row() (in module spacr.profiler) referenced_columns() (in module spacr.qt.widgets.formula) ReferenceOrbit (class in spacr.qt.widgets.fractal_mandelbrot) references (spacr.gene_tile.GeneCandidate property) (spacr.gene_tile.GeneTile property) refine_similarity() (in module spacr.ops_phenotype) refit_settings() (in module spacr.refit) RefitDialog (class in spacr.qt.widgets.refit_dialog) reflow_shape() (in module spacr.qt.widgets.figure_grid) refresh() (spacr.qt.chaining.ChainingBar method) (spacr.qt.counting_tool.CountingPanel method) (spacr.qt.curation_tool.BrushPanel method) (spacr.qt.curation_tool.TrackCurationPanel method) (spacr.qt.layer_viewer.LayerListWidget method) (spacr.qt.model_install.SpotDetectorCombo method) (spacr.qt.prerun.SegQCBanner method) (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.distributed_jobs.DistributedJobsScreen method) (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) (spacr.qt.screens.qc_dashboard.QCDashboardScreen method) (spacr.qt.screens.run_history.RunHistoryScreen method) (spacr.qt.widgets.annotation_strategy_panel.AnnotationStrategyPanel method) (spacr.qt.widgets.cell_montage_view.CellMontageView method) (spacr.qt.widgets.collapsible_splitter.FocusCollapse method) (spacr.qt.widgets.gate_editor.GateTree method) (spacr.qt.widgets.home.HomePage method) (spacr.qt.widgets.home.QueuedPanel method) (spacr.qt.widgets.home.RecentRunsPanel method) (spacr.qt.widgets.home.RunningBanner method) (spacr.qt.widgets.home.SystemPanel method) (spacr.qt.widgets.home.TotalsPanel method) (spacr.qt.widgets.import_workbench.ImportWorkbench method) (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) (spacr.qt.widgets.measurement_compare_dialog.MeasurementCompareDialog method) (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) (spacr.qt.widgets.measurement_scan_panel.ColumnRegressionPanel method) (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) (spacr.qt.widgets.model_zoo_picker.ModelZooPicker method) (spacr.qt.widgets.preview_scale.PreviewScaler method) (spacr.qt.widgets.save_figure_dialog.SaveFigureDialog method) (spacr.qt.widgets.segmentation_views.SegmentationViews method) (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) (spacr.remote_execution.RemoteJobManager method) refresh_all() (spacr.remote_execution.RemoteJobManager method) refresh_all_preview_scales() (in module spacr.qt.widgets.preview_scale) refresh_ambient_background() (spacr.qt.screens.app_screen.AppScreen method) refresh_api_tooltips() (in module spacr.qt.screens.settings_model) refresh_colours() (spacr.qt.widgets.read_view.ReadView method) refresh_count() (spacr.qt.screens.db_browser.DbBrowserScreen method) refresh_current_figure() (spacr.qt.widgets.figure_queue.FigureQueue method) refresh_databases() (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) refresh_figure() (spacr.qt.widgets.figure_queue.FigureQueue method) refresh_icons() (spacr.qt.widgets.dock.Dock method) refresh_installed() (spacr.qt.model_install.SegmentationBackendCombo method) refresh_language() (spacr.qt.app.MainWindow method) refresh_log() (spacr.qt.screens.distributed_jobs.DistributedJobsScreen method) refresh_maturity_visibility() (spacr.qt.screens.app_screen.AppScreen method) refresh_model_choices() (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) refresh_object_visibility() (spacr.qt.screens.settings_model.SettingsWidgets method) refresh_organelle_slots() (spacr.qt.widgets.measure_preview.CropSettingsDialog method) refresh_provider_combo() (spacr.qt.widgets.ai_chat_panel.AIChatPanel method) refresh_the_windows() (in module spacr.qt.gui_scale) refresh_theme() (spacr.qt.app.MainWindow method) refresh_training_basis_enablement() (spacr.qt.screens.settings_model.SettingsWidgets method) refresh_views() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) refresh_visibility() (spacr.qt.widgets.dock.Dock method) (spacr.qt.widgets.live_preview.LiveSettingsDialog method) refusals() (in module spacr.settings_advisor) (spacr.qt.widgets.dose_response.DoseResponseSet method) refuse() (in module spacr.nonparametric_fits) (spacr.qt.widgets.annotation_umap_tab.AnnotationUmapTab method) refused_pairs (spacr.align.AlignPlan property) regex() (spacr.qt.widgets.measure_input_table.MeasureInputTable method) RegexEditorDialog (class in spacr.qt.regex_editor) Region (class in spacr.plaque_papers) region_at() (in module spacr.qt.widgets.plaque_preview) region_filter_hooks() (in module spacr.measure_hooks) RegionContext (class in spacr.measure_hooks) RegionOfInterest (class in spacr.roi) RegionTour (class in spacr.qt.widgets.fractal_travel) register() (in module spacr.artifacts) (in module spacr.ops_settings) (in module spacr.qt.chaining) (in module spacr.qt.maturity) (in module spacr.qt.prerun) (in module spacr.qt.resource_cleanup) (in module spacr.qt.screens.control_chart) (in module spacr.qt.screens.curate) (in module spacr.qt.screens.data_manager) (in module spacr.qt.screens.dose_response) (in module spacr.qt.screens.embeddings) (in module spacr.qt.screens.experiment_design) (in module spacr.qt.screens.feature_explorer) (in module spacr.qt.screens.gate_editor) (in module spacr.qt.screens.graph_builder) (in module spacr.qt.screens.investigate_hit) (in module spacr.qt.screens.lineage) (in module spacr.qt.screens.outliers) (in module spacr.qt.screens.pipeline_graph) (in module spacr.qt.screens.power) (in module spacr.qt.screens.profiler) (in module spacr.qt.screens.project_browser) (in module spacr.qt.screens.qc_dashboard) (in module spacr.qt.screens.run_compare) (in module spacr.qt.screens.tabulate) (in module spacr.qt.screens.trellis) (in module spacr.qt.terms_i18n) (in module spacr.qt.widgets.feature_dictionary) (in module spacr.workspace) (spacr.artifacts.Registry method) (spacr.qt.bridge.RunRegistry method) (spacr.qt.live_zoom.ColumnTextScale method) register_anndata_settings() (in module spacr.anndata_export) register_app() (in module spacr.qt.app) register_binding() (in module spacr.chaining) register_box() (spacr.qt.widgets.measurement_scan_panel.WorkflowSteps method) register_companion_apps() (in module spacr.qt.layer_viewer) register_console_target() (in module spacr.qt.verbose_logger) register_cycles() (in module spacr.ops_cycles) register_declared() (in module spacr.qt.app_catalog) register_defaults() (in module spacr.settings) register_edge() (in module spacr.ops_register) register_illumination_settings() (in module spacr.illumination) register_kwargs() (spacr.qt.app_catalog.DeclaredApp method) register_layer_viewer_app() (in module spacr.qt.layer_viewer) register_model_card() (in module spacr.deep_spacr) register_module_ports() (in module spacr.ports) register_object_opener() (in module spacr.qt.linked_selection) (spacr.qt.linked_selection.LinkedSelection method) register_opener() (in module spacr.qt.help_search) register_outputs() (spacr.runctx.RunContext method) register_pairs() (in module spacr.ops_register) register_preprocessing_hook() (in module spacr.measure_hooks) register_preview() (in module spacr.qt.preview_registry) register_provider() (in module spacr.qt.help_index) register_region_filter_hook() (in module spacr.measure_hooks) register_run_outputs() (in module spacr.artifacts) register_settings() (in module spacr.external_masks) (in module spacr.qt.screens.power) register_steps() (in module spacr.qt.walkthrough) register_text_column() (in module spacr.qt.live_zoom) register_translations() (in module spacr.qt.terms) register_widget_qss() (in module spacr.qt.theme) register_worker() (spacr.runctx.RunContext method) register_workspace() (spacr.qt.screens.app_screen.AppScreen method) registered_bytes (spacr.data_manager.ProjectUsage property) registered_default_apps() (in module spacr.settings) registered_entry() (in module spacr.qt.app) registered_factory() (in module spacr.qt.app) registered_metadata() (in module spacr.qt.app) registered_widget_qss() (in module spacr.qt.theme) RegisteredHook (class in spacr.measure_hooks) Registration (class in spacr.ops_register) Registry (class in spacr.artifacts) registry() (in module spacr.qt.bridge) registry_path() (in module spacr.artifacts) regressable_columns() (in module spacr.qt.widgets.measurement_scan_panel) regression() (in module spacr.ml) regression_design_scan() (in module spacr.qt.screens.settings_model) regression_family_choices() (in module spacr.regression_families) regression_levels() (in module spacr.ml) regression_model() (in module spacr.ml) regression_model_explainer() (in module spacr.qt.screens.settings_model) regression_model_explainer_html() (in module spacr.qt.screens.settings_model) regression_qc_report() (in module spacr.regression_qc) regression_roc_auc() (in module spacr.sim) RegressionDropHandler (class in spacr.qt.dnd_handlers) RegressionQCContext (class in spacr.regression_qc) RegressionResultsPanel (class in spacr.qt.widgets.regression_results) regroup_the_folder() (spacr.qt.widgets.live_preview.LivePreviewPanel method) reink() (in module spacr.qt.iconset) reject() (spacr.qt.starplast.StarplastInstallDialog method) (spacr.qt.starplast.StarplastUpdateCheckDialog method) (spacr.qt.widgets.figure_settings.FigureSettingsDialog method) (spacr.qt.widgets.model_zoo_picker.BackendInstallDialog method) (spacr.qt.widgets.model_zoo_picker.ModelZooPicker method) (spacr.qt.widgets.setup_dialog.SetupDialog method) (spacr.qt.widgets.setup_slides.SetupSlides method) (spacr.qt.widgets.sra_picker.SraPicker method) rejected (spacr.resume.ResumeState property) rejected_suggestions() (in module spacr.suggest) rejection_counts() (spacr.resume.ResumeState method) relabel_by_track() (in module spacr.qt.widgets.timelapse_preview) relabel_objects() (in module spacr.qt.mask_engine) relabel_volume() (in module spacr.zstack) relative() (spacr.ports.Port method) relative_luminance() (in module spacr.figure_style) (in module spacr.qt.theme) relative_representation() (in module spacr.figures.distributions) relative_tolerance() (in module spacr.qt.mask_engine) relayout() (spacr.qt.widgets.dna_rain.DnaRainEngine method) (spacr.qt.widgets.drawer.EdgeDrawer method) (spacr.qt.widgets.figure_grid.SearchFigureGrid method) relayout_for_open() (spacr.qt.widgets.drawer.EdgeDrawer method) release() (in module spacr.frame_handoff) (in module spacr.qt.gil_priority) (spacr.qt.curation_tool.BrushTool method) (spacr.qt.layer_viewer.CanvasTool method) (spacr.qt.widgets.module_hint_bar.ModuleHintBar method) release_canonical_copy() (in module spacr.foreign) releases (spacr.qt.widgets.home.NewsPanel property) relink() (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) reload() (spacr.chaining.PinStore method) (spacr.qt.recipes.RecipeDialog method) (spacr.qt.widgets.primary_mask_selector.PrimaryMaskSelector method) (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) reload_from_src() (in module spacr.qt.widgets.preview_refresh) reload_plugins() (in module spacr.plugins) remember_auto_filed() (in module spacr.qt.ai.settings) remember_disclosure() (in module spacr.qt.settings_search) remember_inventory() (spacr.qt.widgets.cell_montage_view.CellMontageView method) remember_section_layout() (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) remember_section_rows() (spacr.qt.screens.settings_model.SettingsWidgets method) remembered() (in module spacr.qt.ask_for_the_path) remembered_model_dir() (in module spacr.qt.widgets.model_zoo_picker) remembered_runs() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) remembered_sources() (in module spacr.qt.widgets.model_zoo_picker) RemoteExecutionError RemoteJob (class in spacr.remote_execution) RemoteJobManager (class in spacr.remote_execution) RemovalReport (class in spacr.install_cleanup) removals (spacr.updater.DryRun property) remove() (spacr.batch.Queue method) (spacr.layers.CanvasLink method) (spacr.layers.LayerStack method) (spacr.layers.PointsLayer method) (spacr.layers.ShapesLayer method) (spacr.qt.plate_queue.PlateQueue method) (spacr.qt.widgets.formula.FormulaSet method) (spacr.qt.widgets.formula_editor.FormulaPanel method) (spacr.qt.widgets.gate_spec.GateSet method) (spacr.selection.DataFilter method) remove_at() (spacr.counting.CountingSession method) (spacr.qt.widgets.class_editor.ClassEditorWidget method) remove_canvas() (in module spacr.utils) remove_column() (spacr.qt.widgets.data_filter_panel.DataFilterPanel method) remove_columns_with_single_value() (in module spacr.sim) remove_constant_columns() (in module spacr.sim) remove_context_menu_filter() (in module spacr.qt.widgets.feature_dictionary) remove_current() (spacr.qt.widgets.plaque_preview.ContributeDialog method) remove_database() (spacr.qt.screens.gate_editor.GateEditorScreen method) remove_filter() (spacr.qt.screens.make_masks.ObjectFilterList method) remove_highly_correlated_columns() (in module spacr.utils) remove_install() (in module spacr.install_cleanup) remove_intensity_objects() (in module spacr.utils) remove_labels() (in module spacr.object_classifier) remove_low_variance_columns() (in module spacr.utils) remove_mask_folder() (spacr.qt.screens.foreign.ForeignScreen method) remove_noise() (in module spacr.utils) remove_outliers_by_group() (in module spacr.utils) remove_outliers_from_plot() (spacr.plot.spacrGraph method) remove_panel() (spacr.qt.comparison_grid.ComparisonGrid method) remove_runs() (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) remove_selected() (spacr.qt.screens.batch.BatchScreen method) (spacr.qt.widgets.class_editor.ClassEditorWidget method) (spacr.qt.widgets.external_mask_inputs.ExternalMaskInputWidget method) (spacr.qt.widgets.file_list.FilePathListWidget method) (spacr.qt.widgets.formula_editor.FormulaPanel method) (spacr.qt.widgets.gate_editor.GateTree method) (spacr.qt.widgets.measure_input_table.MeasureInputTable method) remove_small_objects() (in module spacr.qt.mask_engine) remove_source() (spacr.qt.widgets.database_set.DatabaseSetWidget method) remove_table() (spacr.qt.screens.gate_editor.GateEditorScreen method) rename() (spacr.layers.LayerStack method) (spacr.qt.widgets.gate_spec.Gate method) rename_columns_in_db() (in module spacr.utils) rename_preview() (in module spacr.regex_infer) Renamed (class in spacr.import_plan) render() (in module spacr.macro) (in module spacr.qt.imagery) (in module spacr.qt.sound_synth) (in module spacr.qt.space) (spacr.layers.Layer method) (spacr.layers.LayerStack method) (spacr.layers.OrthoViews method) (spacr.qt.widgets.fractal_cascade.CascadeEngine method) (spacr.qt.widgets.fractal_space.SpaceEngine method) (spacr.qt.widgets.fractal_travel.OrbitEngine method) render_body() (spacr.qt.widgets.home.NewsPanel static method) render_bundle() (in module spacr.figures.headless) render_cellprob() (in module spacr.qt.widgets.segmentation_views) render_comparison() (in module spacr.gene_measurement_compare) render_data (spacr.qt.widgets.graph_builder.GraphCanvas property) render_figure() (in module spacr.figures.scene) render_figure_to_png() (in module spacr.qt.widgets.figure_queue) render_flows() (in module spacr.qt.widgets.segmentation_views) render_frame() (in module spacr.qt.widgets.timelapse_preview) render_html() (in module spacr.flowview.export) (in module spacr.report) render_labels() (in module spacr.qt.widgets.segmentation_views) render_listing() (in module spacr.cli_download) render_methods() (in module spacr.methods_export) render_motility_figure() (in module spacr.qt.widgets.motility_preview) render_now() (spacr.qt.screens.control_chart.ControlChartCanvas method) (spacr.qt.widgets.gate_editor.GateCanvas method) (spacr.qt.widgets.graph_builder.GraphCanvas method) (spacr.qt.widgets.pca_view.PCAScoresCanvas method) (spacr.qt.widgets.pca_view.ScreePlot method) (spacr.qt.widgets.trellis_view.TrellisCanvas method) render_objects() (in module spacr.qt.widgets.plaque_preview) render_offscreen() (in module spacr.figures.headless) render_overlay() (in module spacr.qt.widgets.plaque_preview) (in module spacr.qt.widgets.segmentation_views) render_panel() (in module spacr.figures.fast_render) render_pdf_to_image() (in module spacr.qt.widgets.figure_queue) render_plate() (spacr.qt.screens.plate_view.PlateViewScreen method) render_prompt() (in module spacr.methods_export) render_qc_field() (in module spacr.qt.widgets.qc_field_browser) render_results() (in module spacr.methods_export) render_rgba() (spacr.layers.LayerStack method) render_setting_value() (in module spacr.train_compare) render_svg() (in module spacr.flowview.export) render_text() (in module spacr.report) render_trial_figure() (in module spacr.qt.screens.hyperparam) render_uint8() (spacr.layers.LayerStack method) render_volcano() (in module spacr.volcano_style) RenderData (class in spacr.qt.widgets.graph_spec) Rendered (class in spacr.qt.sound_synth) rendered() (spacr.qt.widgets.segmentation_views.SegmentationViews method) rendered_description() (in module spacr.qt.help_index) rendered_settings_sections() (spacr.qt.screens.app_screen.AppScreen method)

rendered_subtitle() (in module spacr.qt.help_index) RenderedPanel (class in spacr.figures.fast_render) renderer_for() (in module spacr.figures.fast_render) repaint_fields() (in module spacr.qt.widgets.field_fade) repair_legacy_columns() (in module spacr.database_schema) replace_figure() (spacr.qt.widgets.figure_queue.FigureQueue method) replaced() (spacr.qt.widgets.gate_settings.GateEditorSettings method) reply() (spacr.qt.widgets.gate_console.GateConsole method) repolish() (in module spacr.qt.theme) Report (class in spacr.report) report (spacr.qt.screens.report.ReportScreen property) (spacr.qt.widgets.measurement_compare_dialog.MeasurementCompareDialog property) report() (in module spacr.qt.timing) (spacr.illumination.IlluminationCorrector method) (spacr.qt.screens.agreement.AgreementScreen method) (spacr.qt.screens.map_barcodes.BarcodeSearchPanel method) (spacr.qt.screens.model_compare.ModelCompareScreen method) (spacr.qt.widgets.control_chart.ControlChartResult method) (spacr.qt.widgets.dose_response.DoseResponseResult method) (spacr.qt.widgets.dose_response.DoseResponseSet method) (spacr.qt.widgets.gate_spec.GateSet method) (spacr.qt.widgets.outlier_model.OutlierResult method) (spacr.qt.widgets.pca_model.PCAResult method) (spacr.roi.RoiRegionFilter method) (spacr.sp_stats.ArrayedHitResult method) report_3d_measurements() (in module spacr.zstack) report_agreement() (in module spacr.nonparametric_fits) report_class_balance() (in module spacr.io) report_cv_folds() (in module spacr.io) report_exception() (in module spacr.crashreport) report_sections() (in module spacr.plugins) report_text() (in module spacr.workspace) (spacr.qt.screens.align.AlignScreen method) (spacr.qt.screens.foreign.ForeignScreen method) (spacr.qt.screens.image_import.ImageImportScreen method) (spacr.qt.screens.plate_view.PlateViewScreen method) (spacr.qt.widgets.annotation_strategy_panel.AnnotationStrategyPanel method) ReportContext (class in spacr.plugins) ReportDropHandler (class in spacr.qt.dnd_handlers) reported_control_share() (in module spacr.fraction_calibration) ReportScreen (class in spacr.qt.screens.report) ReportSectionContribution (class in spacr.plugins) REPOSITORY (in module spacr._starplast) reproducible (spacr.qt.widgets.dose_response.PooledFit property) request() (spacr.qt.widgets.annotation_strategy_panel.AnnotationStrategyPanel method) (spacr.qt.widgets.cell_montage_view.CellMontageView method) request_cancel() (spacr.qt.bridge.PipelineWorker method) (spacr.qt.bridge.RunHandle method) request_gpu_enabled() (spacr.qt.screens.hyperparam.HyperparamPanel method) requested_renderer() (in module spacr.figures.fast_render) (in module spacr.figures.scene) require_anisotropy() (spacr.zstack.TStackSpec method) (spacr.zstack.ZStackSpec method) require_anndata() (in module spacr.anndata_export) require_codec() (in module spacr.ome_zarr) require_full_identity() (in module spacr.filters) require_napari() (in module spacr.napari_bridge) require_omero() (in module spacr.omero) require_zarr() (in module spacr.ome_zarr) required_columns (spacr.schema.ObjectTableSchema property) required_fraction() (in module spacr.annotation_power) required_width() (spacr.qt.widgets.eliding.ElidingLabel method) (spacr.qt.widgets.tile.HTile method) requirement_notes() (spacr.cell_montage.CropSourceChoice method) requirements_for_unit() (in module spacr.settings_advisor) reread_around() (in module spacr.plaque_papers) reread_the_preferences() (spacr.qt.widgets.setup_card.SetupCard method) reroot_column() (in module spacr.portable_paths) reroot_crop_path() (in module spacr.portable_paths) RerootReport (class in spacr.portable_paths) resample_isotropic() (in module spacr.zstack) rescale() (spacr.qt.widgets.height_grip.HeightGrip method) rescaled() (spacr.layers.Spacing method) rescan() (spacr.qt.screens.project_browser.ProjectBrowserScreen method) rescore_hits() (spacr.qt.screens.control_chart.ControlChartScreen method) reset() (in module spacr.macro) (in module spacr.qt.walkthrough) (spacr.batch.Job method) (spacr.batch.Queue method) (spacr.layers.CanvasLink method) (spacr.qt.live_zoom.ColumnTextScale method) (spacr.qt.sound_preferences.SoundPage method) (spacr.qt.widgets.eliding.ProgressLine method) (spacr.qt.widgets.height_grip.HeightGrip method) (spacr.qt.widgets.hint_bar.HintBar method) reset_all_preview_scales() (in module spacr.qt.widgets.preview_scale) reset_cellpose_model_reports() (in module spacr.utils) reset_counts() (spacr.qt.widgets.home.TotalsPanel method) reset_decode_count() (in module spacr.qt.imagery) reset_every_scale() (in module spacr.qt.gui_scale) reset_mp() (in module spacr.utils) reset_system_prompt() (in module spacr.qt.ai.settings) reset_tour_state() (in module spacr.qt.first_run) reset_user_height() (spacr.qt.widgets.object_settings_grid.ObjectSettingsGrid method) reset_view() (spacr.qt.comparison_grid.ComparisonGrid method) (spacr.qt.layer_viewer.LayerCanvas method) (spacr.qt.ortho_view.OrthoView method) (spacr.qt.widgets.gate_editor.GateCanvas method) (spacr.qt.widgets.gate_editor.GateEditorPanel method) (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView method) reshuffle() (spacr.qt.widgets.preview_controls.ImageSetSampler method) resident_openmp_runtimes() (in module spacr.openmp_guard) residual_diagnostics() (in module spacr.trial_metrics) residual_normality() (in module spacr.regression_qc) residual_report() (in module spacr.regression_diagnostics) ResidualPlot (class in spacr.qt.widgets.fast_plots) residuals (spacr.ops_stitch.StitchedWell property) ResidualStandardisation (class in spacr.regression_qc) resizable_box() (in module spacr.qt.widgets.measurement_scan_panel) resize() (spacr.layers.CanvasLink method) (spacr.qt.widgets.dna_rain.DnaRainEngine method) resize_images_and_labels() (in module spacr.utils) resize_labels_back() (in module spacr.utils) resize_target() (spacr.qt.widgets.height_grip.HeightGrip method) resized() (spacr.layers.Canvas method) (spacr.layers.OrthoViews method) resizeEvent() (spacr.qt.app.MainWindow method) (spacr.qt.comparison_grid.ComparisonGrid method) (spacr.qt.regex_editor.RegexEditorDialog method) (spacr.qt.screens.annotate.AnnotateScreen method) (spacr.qt.screens.image_scatter.ScatterCanvas method) (spacr.qt.settings_search.SettingsSearchBar method) (spacr.qt.shortcuts.ShortcutOverlay method) (spacr.qt.widgets.ai_toggle_label.AiToggleLabel method) (spacr.qt.widgets.api_help_label.ApiHelpLabel method) (spacr.qt.widgets.cell_montage_view.CellMontageView method) (spacr.qt.widgets.collapsible_splitter.CollapsibleSplitter method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) (spacr.qt.widgets.eliding.ElidingLabel method) (spacr.qt.widgets.eliding.ElidingPushButton method) (spacr.qt.widgets.fast_plots.FastPlot method) (spacr.qt.widgets.figure_grid_view.FigureGridView method) (spacr.qt.widgets.home.HomePage method) (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.loading_screen.LoadingScreen method) (spacr.qt.widgets.organism_diagram.OrganismDiagram method) (spacr.qt.widgets.setup_dialog.SetupDialog method) (spacr.qt.widgets.setup_slides.SetupSlides method) (spacr.qt.widgets.test_data_chooser.TestDataChooser method) (spacr.qt.widgets.workflow_diagram.WorkflowView method) (spacr.qt.widgets.zoom_view.ZoomableImageView method) ResNet (class in spacr.utils) Resolution (class in spacr.chaining) (class in spacr.uniprot) resolution() (spacr.qt.widgets.ambient.AmbientWidget method) ResolutionResult (class in spacr.metadata_resolution) resolve() (in module spacr.accelerator) (in module spacr.baseline) (in module spacr.column_groups) (in module spacr.columns) (in module spacr.figure_style) (in module spacr.model_zoo) (in module spacr.uniprot) (spacr.crops.PngCropSource method) (spacr.feature_dict.ConditionalUnit method) (spacr.foreign.ColumnMap method) (spacr.qt.app_catalog.LazyScreenFactory method) (spacr.qt.dnd_handlers.LayoutDropHandler method) resolve_anisotropy() (in module spacr.zstack) resolve_auto_inference() (in module spacr.ml) resolve_axis_order() (in module spacr.zstack) resolve_backend() (in module spacr.power_model) (in module spacr.qt.widgets.fractal_travel) resolve_backend_name() (in module spacr.regression_backends) resolve_basis() (in module spacr.training_basis) resolve_cam_type() (in module spacr.attribution) resolve_class_balance_loss() (in module spacr.deep_spacr) resolve_column() (in module spacr.filters) resolve_control() (in module spacr.control_names) resolve_controls() (in module spacr.control_names) resolve_crop_path() (in module spacr.qt.crop_thumbs) resolve_crop_source() (in module spacr.crops) resolve_db_path() (in module spacr.anndata_export) (in module spacr.qt.screens.db_browser) (in module spacr.qt.widgets.column_picker) resolve_default_settings() (in module spacr.qt.screens.settings_model) resolve_detector() (in module spacr.qt.widgets.plaque_preview) resolve_device() (in module spacr.mixed_gpu) resolve_drop() (in module spacr.chaining) resolve_effective_theme() (in module spacr.qt.preferences) resolve_error_policy() (in module spacr.runctx) resolve_exclusions() (in module spacr.read_background) resolve_family() (in module spacr.classify) resolve_field_path() (in module spacr.qc_quarantine) resolve_glm_transform_conflict() (in module spacr.ml) resolve_groups() (spacr.settings.BarcodeSet method) resolve_ink() (in module spacr.figures.style) resolve_job_settings() (in module spacr.batch) resolve_layer() (in module spacr.attribution) resolve_level() (in module spacr.resource_log) resolve_levels() (in module spacr.ml) resolve_line_ink() (in module spacr.figures.style) resolve_measure() (in module spacr.active_learning) resolve_measurement_spacing() (in module spacr.measure) resolve_merged_dir() (in module spacr.qt.widgets.motility_preview) resolve_merged_source() (in module spacr.qt.widgets.measure_preview) resolve_metadata_collisions() (in module spacr.schema) resolve_metadata_columns() (in module spacr.metadata_resolution) resolve_metadata_with_dialog() (in module spacr.qt.widgets.metadata_mapper) resolve_mixed_precision() (in module spacr.deep_spacr) resolve_ml_model_type() (in module spacr.classify) resolve_mode() (in module spacr.workspace) resolve_model_source() (in module spacr.model_check) resolve_module() (in module spacr.cli) resolve_montage_crop_source() (in module spacr.cell_montage) resolve_n_jobs() (in module spacr.measure) resolve_order() (in module spacr.curation_queue) resolve_paper() (in module spacr.plaque_papers) resolve_path() (in module spacr.tabular) (spacr.crops.MergedCropSource method) resolve_pipeline_entry() (in module spacr.qt.bridge) resolve_plaque_model() (in module spacr.qt.widgets.plaque_preview) resolve_png_channel_mapping() (in module spacr.crops) resolve_pool_size() (in module spacr.measure) resolve_port() (in module spacr.ports) resolve_record() (in module spacr.intensity_rescale) resolve_region() (spacr.ome_zarr.OmeZarrImage method) resolve_regression_src() (in module spacr.ml) resolve_residual_standardisation() (in module spacr.regression_qc) resolve_rng() (in module spacr.power_simulate) resolve_run_dir() (in module spacr.run_journal) resolve_seed() (in module spacr.runctx) resolve_selection() (in module spacr.cli_download) resolve_settings() (in module spacr.chaining) (in module spacr.cli) resolve_source() (in module spacr.crop_source) resolve_suggestions() (in module spacr.suggest) resolve_token() (in module spacr.qt.ai.github_auth) resolve_type() (in module spacr.organelle_types) resolved (spacr.gene_tile.GeneTile property) resolved_cpu_threads() (in module spacr.qt.widgets.fractal_travel) resolved_kind() (spacr.qt.widgets.graph_spec.GraphSpec method) resolved_model (spacr.model_compare.ModelConfig property) resolved_quality() (in module spacr.qt.widgets.fractal_travel) ResolvedColumn (class in spacr.foreign) ResolvedPort (class in spacr.ports) Resonance (class in spacr.qt.resonance) ResourceSampler (class in spacr.resource_log) response() (in module spacr.figures.distributions) response_column() (in module spacr.figures.distributions) response_scale() (in module spacr.profiler) responsive_gui() (in module spacr.qt.gil_priority) restart() (spacr.qt.widgets.fractal_mandelbrot.SteeringCamera method) (spacr.qt.widgets.fractal_travel.RegionTour method) restart_spacr() (in module spacr.qt.shutdown) restart_the_dive() (in module spacr.qt.widgets.fractal_travel) restate_fold_button() (in module spacr.qt.screens.map_barcodes) resting_border_color() (in module spacr.qt.screens.annotate) restore() (in module spacr.workspace) (spacr.qt.widgets.data_filter_panel.DataFilterPanel method) restore_anisotropic() (in module spacr.zstack) restore_field() (in module spacr.qc_quarantine) restore_recropped_original() (in module spacr.qt.mask_engine) restore_rng_state() (in module spacr.torch_artifacts) restore_run_workspace() (spacr.qt.screens.app_screen.AppScreen method) restore_section_layout() (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) restore_source() (spacr.qt.widgets.primary_mask_selector.PrimaryMaskSelector method) restore_training_state() (in module spacr.torch_artifacts) restyle() (spacr.qt.live_zoom.ColumnTextScale method) (spacr.qt.widgets.fast_plots.FastPlot method) restyle_all() (spacr.qt.live_zoom.ColumnTextScale method) restyle_for_theme() (spacr.qt.widgets.dna_rain.DnaRainSettingsBar method) restyle_umap_figure() (in module spacr.qt.widgets.umap_figure_settings) Result (class in spacr.doctor) result (spacr.qt.screens.control_chart.ControlChartCanvas property) (spacr.qt.screens.control_chart.ControlChartScreen property) (spacr.qt.screens.hyperparam.HyperparamPanel property) (spacr.qt.screens.outliers.OutliersScreen property) (spacr.qt.widgets.feature_explorer.FeatureExplorerPanel property) (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel property) (spacr.qt.widgets.pca_view.PCAPanel property) (spacr.qt.widgets.pca_view.PCAScoresCanvas property) (spacr.qt.widgets.pivot_builder.PivotPanel property) (spacr.qt.widgets.pivot_builder.PivotTable property) result() (spacr.qt.screens.align.AlignScreen method) (spacr.qt.screens.batch.BatchScreen method) (spacr.qt.screens.convert.ConvertScreen method) (spacr.qt.screens.foreign.ForeignScreen method) (spacr.qt.screens.image_import.ImageImportScreen method) (spacr.qt.screens.measure_inputs.MeasureInputsScreen method) (spacr.qt.screens.model_zoo.ModelZooScreen method) (spacr.qt.screens.power.PowerScreen method) (spacr.qt.widgets.annotation_strategy_panel.AnnotationStrategyPanel method) result_keys() (spacr.qt.widgets.feature_dictionary.FeatureDictionaryPanel method) result_set() (spacr.qt.screens.dose_response.DoseResponseScreen method) result_tables() (in module spacr.chaining) results() (spacr.qt.help_search.HelpSearchField method) (spacr.qt.widgets.dose_response.DoseResponseSet method) (spacr.qt.widgets.formula_editor.FormulaPanel method) (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) results_folder_kind() (in module spacr.ml) results_frame() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) results_panel() (in module spacr.qt.screens.regression) ResultsDatabaseDropHandler (class in spacr.qt.dnd_handlers) ResultsFolderDropHandler (class in spacr.qt.dnd_handlers) ResultsTable (class in spacr.qt.widgets.fast_plots) resume() (spacr.qt.bridge.PauseGate method) resume_after_restart() (spacr.qt.app.MainWindow method) resume_enabled() (in module spacr.resume) (spacr.qt.screens.convert.ConvertScreen method) resume_queue() (in module spacr.batch) ResumeRefused ResumeState (class in spacr.resume) retained_ratio (spacr.qt.widgets.pca_model.PCAResult property) retarget_field_tooltips() (in module spacr.qt.screens.settings_model) retention_scale() (in module spacr.qt.preferences) retire() (spacr.qt.bridge.RunHandle method) retire_pyqtgraph_menus() (in module spacr.qt.widget_cleanup) retire_recropped_original() (in module spacr.qt.mask_engine) retrain_round() (in module spacr.active_learning) retranslate() (spacr.qt.widgets.setup_slides.SetupSlides method) retranslate_dynamic_content() (spacr.qt.screens.annotate.AnnotateScreen method) (spacr.qt.widgets.api_help_label.ApiHelpLabel method) (spacr.qt.widgets.dock.DockEdge method) (spacr.qt.widgets.gene_tile.GeneTilePanel method) (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.settings_advisor_dialog.ProposalPage method) retranslate_widget_tree() (in module spacr.qt.i18n) retries (spacr.runctx.ErrorPolicy property) reveal() (spacr.qt.settings_search.SettingsSearchBar method) reveal_row() (in module spacr.qt.preferences_navigation) reveal_setting() (in module spacr.qt.help_search) reveal_settings() (spacr.qt.screens.app_screen.AppScreen method) revealed_key() (spacr.qt.settings_search.SettingsSearchBar method) reverse_complement() (in module spacr.barcode_search) (in module spacr.sequencing) revert() (spacr.curation.LabelEdit method) revert_promotion() (in module spacr.hit_attribution) review_gallery_key() (in module spacr.hit_investigation) review_gallery_manifest() (in module spacr.hit_investigation) review_note() (in module spacr.qt.terms_i18n) reviewed (spacr.curation_queue.StatusRow property) revision (spacr.flowview.collector.Collector property) rgamma_mean_variance() (in module spacr.power_simulate) rgb_to_cv2() (in module spacr.image_colors) right (spacr.ops_compose.Window property) rim_colour() (in module spacr.qt.theme) ring() (spacr.plate_qc.EdgeEffectReport method) RingStats (class in spacr.plate_qc) ripley_k() (in module spacr.point_patterns) ripley_test() (in module spacr.point_patterns) rle_decode() (in module spacr.mask_io) rle_encode() (in module spacr.mask_io) rnbinom_mean_variance() (in module spacr.power_simulate) rng() (spacr.runctx.RunContext method) robust_scale() (in module spacr.qt.widgets.outlier_model) robust_z_scores() (in module spacr.sp_stats) rogan_gladen() (in module spacr.classifier_quality) roi_format() (in module spacr.mask_io) roi_layer() (spacr.qt.roi_tool.RoiPanel method) roi_path (spacr.qt.roi_tool.RoiPanel property) roi_set() (spacr.qt.roi_tool.RoiPanel method) roi_suffix() (in module spacr.mask_io) RoiError RoiPanel (class in spacr.qt.roi_tool) RoiPen (class in spacr.qt.roi_tool) RoiRegionFilter (class in spacr.roi) rois_for() (spacr.roi.RoiSet method) RoiSet (class in spacr.roi) roiset_to_masks() (in module spacr.mask_io) role (spacr.ports.ResolvedPort property) role_caption() (in module spacr.qt.widgets.measure_input_table) role_counts() (spacr.regression_annotation.AnnotationResult method) role_setting() (in module spacr.object_roles) role_trouble() (in module spacr.import_plan) roles() (spacr.barcode_search.BarcodeSearchReport method) (spacr.qt.widgets.import_workbench.ImportWorkbench method) roll_up() (in module spacr.merge_tables) root (spacr.image_import.ImportPlan property) root() (spacr.qt.screens.train_compare.TrainCompareScreen method) root_of() (spacr.qt.live_zoom.ColumnTextScale method) root_path() (spacr.qt.screens.image_import.ImageImportScreen method) roots() (spacr.pipeline_graph.PipelineGraph method) (spacr.qt.live_zoom.ColumnTextScale method) (spacr.qt.screens.project_browser.ProjectBrowserScreen method) rotate_about_world() (in module spacr.qt.widgets.volume_view) rotate_ticks() (in module spacr.figures.style) round_features() (in module spacr.active_learning) round_half_up() (in module spacr.cell_montage) round_the_corners() (in module spacr.qt.widgets.glass) round_well_layout() (in module spacr.ops_layout) RoundResult (class in spacr.active_learning) RouteRequirements (class in spacr.cell_montage) row() (spacr.ops_objects.PlateObject method) (spacr.qt.screens.image_import.ProposalModel method) row_column_trends() (in module spacr.plate_qc) row_count() (in module spacr.filters) (in module spacr.ops_store) (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.widgets.read_view.ReadView method) row_count_is_estimate() (spacr.qt.screens.db_browser.DbBrowserScreen method) row_field() (in module spacr.qt.preferences_navigation) row_for() (spacr.qt.widgets.home.StageLegend method) row_height() (spacr.qt.widgets.dock.Dock method) row_id() (in module spacr.schema) row_index() (in module spacr.schema) row_index_from_letters() (in module spacr.schema) row_key() (spacr.qt.screens.db_browser.PreviewModel method) (spacr.qt.screens.db_browser.ReadOnlyDb method) row_key_columns() (spacr.schema.ObjectTableSchema method) row_label() (in module spacr.plate_qc) (in module spacr.well_spec) (spacr.qt.widgets.pivot_spec.PivotResult method) row_number() (in module spacr.well_spec) row_of() (spacr.qt.screens.foreign.ColumnMapModel method) row_share (spacr.qt.widgets.pca_model.PCAResult property) row_status() (spacr.qt.screens.batch.BatchScreen method) row_values() (spacr.qt.screens.batch.BatchScreen method) row_world() (spacr.layers.Canvas method) rowCount() (spacr.qt.screens.convert.PlanTableModel method) (spacr.qt.screens.db_browser.PreviewModel method) (spacr.qt.screens.foreign.ColumnMapModel method) (spacr.qt.screens.image_import.AnswerModel method) (spacr.qt.screens.image_import.ProposalModel method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsModel method) RowExclusionEditor (class in spacr.qt.widgets.row_exclusion) rowid_expression() (in module spacr.filters) rows (spacr.plate_measurements.PlateMerge property) (spacr.qt.screens.settings_model.SettingsSection property) (spacr.qt.settings_diff.SettingsDiff property) (spacr.umap_search.SearchTable property) rows() (spacr.cell_montage.MontagePlan method) (spacr.convert.ConversionResult method) (spacr.image_import.ImportPlan method) (spacr.qt.screens.db_browser.PreviewModel method) (spacr.qt.screens.make_masks.ObjectFilterList method) (spacr.qt.screens.model_zoo.ModelZooScreen method) (spacr.qt.widgets.dock.Dock method) (spacr.qt.widgets.mask_comparison.MaskComparisonDialog method) (spacr.qt.widgets.metadata_table.MetadataTablePanel method) (spacr.qt.widgets.sweep_panel.SweepPanel method) rows_for() (in module spacr.control_names) rows_for_selection() (spacr.qt.screens.db_browser.DbBrowserScreen method) rows_from() (in module spacr.attribution_columns) rows_per_source (spacr.plate_measurements.PlateMerge property) rows_read_per_source (spacr.plate_measurements.PlateMerge property) rows_to_compare() (spacr.qt.widgets.cell_montage_view.CellMontageView method) rows_to_mappings() (in module spacr.qt.ingest_preview) rows_unmatched (spacr.foreign.JoinReport property) ruler_active() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) ruler_microns_per_pixel() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) rules() (spacr.qt.widgets.class_editor.ClassEditorWidget method) rules_at() (spacr.qt.widgets.control_chart.ControlChartResult method) Run (class in spacr.run_journal) run() (in module spacr.qt) (in module spacr.regression_annotation) (spacr.qt.ai.worker.StreamWorker method) (spacr.qt.bridge.PipelineWorker method) (spacr.qt.screens.batch.BatchScreen method) (spacr.qt.screens.measure_inputs.MeasureInputsScreen method) (spacr.qt.screens.model_explanation.ExplainCvPanel method) (spacr.qt.screens.model_explanation.InvestigateHitPanel method) (spacr.qt.screens.power.PowerScreen method) (spacr.qt.widgets.annotation_strategy_panel.AnnotationStrategyPanel method) (spacr.qt.widgets.annotation_umap_tab.AnnotationUmapTab method) (spacr.qt.widgets.gate_console.GateConsole method) (spacr.runctx.ErrorPolicy method) run_already_complete() (in module spacr.resume) run_analysis() (spacr.qt.screens.model_explanation.ExplainCvPanel method) (spacr.qt.screens.model_explanation.InvestigateHitPanel method) run_and_save() (in module spacr.sim) run_anndata_export() (in module spacr.anndata_export) run_benchmark() (spacr.qt.screens.model_zoo.ModelZooScreen method) run_cellpose() (spacr.qt.screens.make_masks.MakeMasksScreen method) run_checks() (in module spacr.doctor) run_cluster() (spacr.qt.widgets.gate_editor.GateEditorPanel method) run_column_fits() (in module spacr.qt.widgets.measurement_scan_panel) run_concurrency_probe() (in module spacr.database_concurrency) run_context() (in module spacr.runctx) run_convert() (spacr.qt.screens.convert.ConvertScreen method) run_correction() (spacr.qt.widgets.fast_plots.VolcanoPlot method) run_event_loop() (in module spacr.napari_bridge) run_experiment() (in module spacr.sim) run_explain_cv() (in module spacr.surrogate) run_external_masks() (in module spacr.external_masks) run_folder() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) run_ids() (spacr.qt.screens.train_compare.TrainCompareScreen method) run_import() (in module spacr.foreign) (spacr.qt.screens.foreign.ForeignScreen method) (spacr.qt.screens.image_import.ImageImportScreen method) run_input() (spacr.qt.widgets.gate_console.GateConsole method) run_install() (in module spacr.qt.ai.cli_install) run_install_command() (in module spacr.updater) run_install_offer() (in module spacr.qt.widgets.availability_panel) run_is_complete() (in module spacr.errors) run_launch_cleanup() (in module spacr.qt.resource_cleanup) run_log_path() (in module spacr.runctx) run_mask() (in module spacr.api) run_measure() (in module spacr.api) run_motility_pass() (in module spacr.qt.widgets.motility_preview) run_multiple_simulations() (in module spacr.sim) run_name() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) run_ops() (in module spacr.ops_engine) run_photograph() (spacr.qt.screens.app_screen.AppScreen method) run_pip_upgrade() (in module spacr.updater) run_power_sweep() (in module spacr.qt.screens.power) run_pre_run_cleanup() (in module spacr.qt.resource_cleanup) run_preview() (spacr.qt.widgets.host_pathogen_preview.HostPathogenPreviewPanel method) (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) run_preview_pass() (in module spacr.qt.widgets.timelapse_preview) run_queue() (in module spacr.batch) (in module spacr.qt.plate_queue) run_resource_action() (in module spacr.qt.preferences) run_resource_path() (in module spacr.runctx) run_rows() (spacr.qt.screens.train_compare.TrainCompareScreen method) run_scan() (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) run_search() (spacr.qt.screens.hyperparam.HyperparamPanel method) run_search_for_app() (in module spacr.hyperparam) run_sections() (spacr.qt.widgets.figure_queue.FigureQueue method) run_segmentation_qc() (in module spacr.seg_qc) run_simulation() (in module spacr.sim) run_sweep() (in module spacr.parameter_sweep) run_sweep_parallel() (in module spacr.parameter_sweep) run_update_sequence() (in module spacr.install_cleanup) run_v2() (in module spacr.pipeline_v2) RunCompareScreen (class in spacr.qt.screens.run_compare) RunComparison (class in spacr.run_compare) RunContext (class in spacr.runctx) RunCounts (class in spacr.run_compare) RunFile (class in spacr.sra) RunGraph (class in spacr.flowview.model) RunHandle (class in spacr.qt.bridge) RunHistoryDropHandler (class in spacr.qt.dnd_handlers) RunHistoryScreen (class in spacr.qt.screens.run_history) RunIdFilter (class in spacr.runctx) RunLedger (class in spacr.errors) runnable (spacr.macro.MacroStep property) running (spacr.flowview.feeder.MultiprocessingFeeder property) (spacr.qt.widgets.model_zoo_picker.BackendInstallDialog property) running_modules() (spacr.qt.screens.app_screen.AppScreen method) RunningBanner (class in spacr.qt.widgets.home) RunRef (class in spacr.run_compare) RunRegistry (class in spacr.qt.bridge) runs() (spacr.qt.screens.run_compare.RunCompareScreen method) (spacr.qt.screens.train_compare.TrainCompareScreen method) runs_for() (in module spacr.sra) runs_in() (in module spacr.run_compare) runs_log_dir() (in module spacr.runctx) runs_root() (in module spacr.run_journal) RunStatusUnreadable RunSummary (class in spacr.regression_summary) RuntimeControls (class in spacr.qt.widgets.fractal_travel)

S

safe_outline_palette() (in module spacr.qt.widgets.live_preview) SaliencyMapGenerator (class in spacr.utils) same_path() (in module spacr.chaining) sample() (in module spacr.qt.resonance) (spacr.hyperparam.SearchSpace method) (spacr.qt.screens.image_import.ImageImportScreen method) (spacr.qt.widgets.fractal_travel.Pointer method) (spacr.qt.widgets.preview_controls.ImageSetSampler method) sample_count_mean_variance() (in module spacr.power_simulate) sample_description (spacr.regression_qc.RegressionQCContext property) sample_fastq_reads() (in module spacr.barcode_search) sample_folder() (in module spacr.qt.make_masks_datasets) sample_identity() (in module spacr.classifier_evaluation) sample_image_names() (in module spacr.qt.dnd) sample_image_sets() (in module spacr.qt.widgets.preview_controls) sample_note() (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) (spacr.settings_advisor.Reading method) sample_objects() (in module spacr.ops_sample) sample_once() (spacr.resource_log.ResourceSampler method) sample_seed() (in module spacr.qt.widgets.preview_controls) sample_star_fluxes() (in module spacr.qt.space) sample_star_temperatures() (in module spacr.qt.space) sampled (spacr.flowview.collector.Collector property) SampleError SampleProjectDialog (class in spacr.qt.widgets.sample_project) samples() (spacr.regex_infer.FieldEvidence method) (spacr.resource_log.ResourceSampler method) sampling_clause() (in module spacr.filters) sanitize_path() (in module spacr.qt.ai.issue_report) sanitize_settings() (in module spacr.qt.ai.issue_report) sanitize_traceback() (in module spacr.qt.ai.issue_report) SanityCheck (class in spacr.attribution) satisfied (spacr.cell_montage.RouteRequirements property) satisfies() (in module spacr.chaining) save() (in module spacr.figures.bundle) (in module spacr.gate_library) (in module spacr.gene_measurement_compare) (in module spacr.restart_state) (in module spacr.workspace) (spacr.curation.TrackCuration method) (spacr.illumination.IlluminationModel method) (spacr.qt.curation_tool.TrackCurationPanel method) (spacr.qt.plate_queue.PlateQueue method) (spacr.qt.sound_preferences.SoundPage method) (spacr.qt.widgets.annotation_strategy_panel.AnnotationStrategyPanel method) (spacr.qt.widgets.cell_montage_view.CellMontageView method) (spacr.qt.widgets.data_filter_panel.DataFilterPanel method) (spacr.qt.widgets.gate_spec.GateSet method) (spacr.qt.widgets.save_figure_dialog.SaveFigureDialog method) (spacr.qt.widgets.sweep_panel.SweepPanel method) (spacr.remote_execution.JobStore method) (spacr.remote_execution.ProfileStore method) (spacr.roi.RoiSet method) (spacr.volcano_style.VolcanoStyle method) save_and_add_image_to_grid() (in module spacr.measure) save_annotations() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) save_as() (in module spacr.qt.widgets.picture_export) save_column_map() (in module spacr.foreign) save_coordinates() (in module spacr.align) save_csv() (spacr.pipeline_v2.FilenameMapper method) save_curated_mask() (spacr.qt.screens.make_masks.MakeMasksScreen method) save_data() (in module spacr.sim) save_df_to_hdf5() (in module spacr.sequencing) save_distributions() (in module spacr.figures.distributions) save_everything() (spacr.qt.widgets.measurement_compare_dialog.MeasurementCompareDialog method) (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) save_figure() (in module spacr.plot) (in module spacr.timelapse) save_figure_as() (in module spacr.qt.widgets.figure_settings) save_file_lists() (in module spacr.utils) save_filename_map() (in module spacr.qt.folder_metadata) save_filters() (spacr.qt.screens.gate_editor.GateEditorScreen method) save_for_run() (in module spacr.workspace) save_gates() (spacr.qt.screens.gate_editor.GateEditorScreen method) save_graph() (spacr.qt.screens.gate_editor.GateEditorScreen method) save_graph_style() (in module spacr.qt.widgets.figure_settings) save_guide_permutation_results() (in module spacr.guide_permutation) save_log() (spacr.curation.MaskCuration method) (spacr.qt.curation_tool.BrushPanel method) save_log_bundle() (in module spacr.qt.ai.issue_report) save_mapping() (spacr.qt.screens.foreign.ForeignScreen method) save_mask() (in module spacr.mask_io) (in module spacr.qt.mask_engine) (spacr.curation.MaskCuration method) (spacr.qt.curation_tool.BrushPanel method) save_model_artifact() (in module spacr.torch_artifacts) save_object_mask() (in module spacr.io) save_picture() (in module spacr.qt.widgets.picture_export) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) save_plan() (in module spacr.image_import) (spacr.qt.screens.image_import.ImageImportScreen method) save_plot() (in module spacr.sim) save_qc_df_to_csv() (in module spacr.sequencing) save_queue() (in module spacr.batch) save_queue_to() (spacr.qt.screens.batch.BatchScreen method) save_recipe() (in module spacr.qt.recipes) save_results_dataframe() (in module spacr.timelapse) save_run_states() (in module spacr.qt.widgets.sweep_runs) save_seg_bundle() (in module spacr.qt.mask_engine) save_settings() (in module spacr.utils) save_settings_csv() (in module spacr.qt.synthetic) save_shap_plot() (in module spacr.sim) save_style() (in module spacr.qt.widgets.fast_plots) save_styled() (spacr.qt.widgets.fast_plots.FastPlot method) save_summary_to_file() (in module spacr.ml) save_to_file() (spacr.qt.widgets.folding_summary.FoldingSummaryView method) save_top_class_examples() (in module spacr.deep_spacr) save_topology() (spacr.qt.widgets.gene_panel.GenePanel method) save_unique_combinations_to_csv() (in module spacr.sequencing) saved_figure_appearance() (in module spacr.figure_style) SavedFigureAppearance (class in spacr.figure_style) SaveFigureDialog (class in spacr.qt.widgets.save_figure_dialog) saver_process() (in module spacr.sequencing) SaveWorker (class in spacr.qt.annotate_engine) say() (spacr.qt.screens.make_masks.NapariBridgeScreen method) (spacr.qt.widgets.annotation_umap_tab.AnnotationUmapTab method) (spacr.qt.widgets.regression_results.RegressionResultsPanel method) sbs_mean_target() (in module spacr.ops_cycles) scale (spacr.layers.OrthoViews property) scale() (spacr.qt.live_zoom.ColumnTextScale method) (spacr.qt.widgets.preview_scale.PreviewScaler method) scale_at() (in module spacr.qt.widgets.fractal_mandelbrot) scale_figure_canvas() (in module spacr.qt.widgets.preview_scale) scale_for() (spacr.qt.widgets.gate_settings.GateEditorSettings method) scale_from_well() (in module spacr.plaque) scale_group_values() (in module spacr.qt.preferences) scale_int() (in module spacr.qt.gui_scale) scale_note() (in module spacr.qt.sound_synth) scale_qss() (in module spacr.qt.widgets.preview_scale) scale_qss_text() (in module spacr.qt.gui_scale) scale_variables() (in module spacr.ml) scaled() (spacr.qt.widgets.gate_spec.BoxGate method) (spacr.qt.widgets.gate_spec.CompositeGate method) (spacr.qt.widgets.gate_spec.CylinderGate method) (spacr.qt.widgets.gate_spec.EllipseGate method) (spacr.qt.widgets.gate_spec.Gate method) (spacr.qt.widgets.gate_spec.PolygonGate method) (spacr.qt.widgets.gate_spec.PrismGate method) (spacr.qt.widgets.gate_spec.RectGate method) (spacr.qt.widgets.gate_spec.ThresholdGate method) (spacr.qt.widgets.gate_spec.ViewGate method) scaled_font_sheet() (in module spacr.qt.live_zoom) scaled_for() (in module spacr.qt.hidpi) scaled_px() (in module spacr.qt.preferences) ScaledDotProductAttention (class in spacr.utils) ScaleLocationPlot (class in spacr.qt.widgets.fast_plots) Scales (class in spacr.qt.widgets.graph_spec) scales (spacr.qt.widgets.graph_builder.GraphCanvas property) scales_at() (spacr.qt.widgets.trellis_spec.Trellis method) scales_for() (in module spacr.qt.widgets.graph_spec) scan() (in module spacr.convert) (in module spacr.projects) (spacr.qt.screens.classifier_evaluation.ClassifierEvaluationScreen method) (spacr.qt.screens.data_manager.DataManagerScreen method) (spacr.qt.screens.image_import.ImageImportScreen method) (spacr.qt.screens.model_zoo.ModelZooScreen method) (spacr.qt.screens.outliers.OutliersScreen method) (spacr.qt.screens.report.ReportScreen method) (spacr.qt.screens.train_compare.TrainCompareScreen method) (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) scan_folder_structure() (in module spacr.qt.dnd_handlers) scan_is_busy() (in module spacr.qt.dnd_handlers) scan_mask_container() (in module spacr.qt.dnd_handlers) scan_mask_drop() (in module spacr.qt.dnd_handlers) scan_mask_folder() (in module spacr.qt.dnd_handlers) scan_measurements() (in module spacr.measurement_scan) scan_parameters() (in module spacr.power_model) scan_plate_payload() (in module spacr.qt.widgets.motility_preview) scan_project() (in module spacr.data_manager) scan_tiles() (in module spacr.align) ScanRefused ScanResult (class in spacr.measurement_scan) ScatterCanvas (class in spacr.qt.screens.image_scatter) ScatterTableDropHandler (class in spacr.qt.dnd_handlers) scene_renderer() (in module spacr.figures.scene) SceneReport (class in spacr.figures.scene) schedule_close() (spacr.qt.widgets.drawer.EdgeDrawer method) schedule_refresh() (spacr.qt.prerun.SegQCBanner method) SCHEMA_VERSION (in module spacr.setting_animations) (in module spacr.workspace) SchemaError SchemaReader (class in spacr.qt.widgets.column_picker) scheme_of() (in module spacr.qt.theme) scope_for() (in module spacr.feature_dict) scoped_objects() (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) score (spacr.umap_search.ClusterWalkRow property) (spacr.umap_search.SearchRow property) score() (in module spacr.qt.help_index) score_annotation() (in module spacr.annotation_validation) score_arrayed_screen() (in module spacr.sp_stats) score_classifier() (in module spacr.scorecard) score_csvs() (spacr.qt.widgets.cell_montage_view.CellMontageView method) score_design() (in module spacr.regression_diagnostics) score_digest() (in module spacr.seg_qc) score_field() (in module spacr.seg_qc) score_for() (spacr.qt.widgets.feature_rank.ExplorerResult method) score_holdout() (in module spacr.scorecard) score_inference() (in module spacr.regression_diagnostics) score_input_columns() (in module spacr.regression_annotation) score_masks() (in module spacr.seg_qc) score_model_on_holdout() (in module spacr.scorecard) score_pair() (in module spacr.timeflows_validation) score_panel() (in module spacr.regression_qc) score_ramp() (in module spacr.figures.plates) score_residuals() (in module spacr.regression_diagnostics) score_screen() (in module spacr.sp_stats) score_segmentation() (in module spacr.scorecard) score_stats() (spacr.hyperparam.SearchResult method) score_stitcher() (in module spacr.timeflows_baseline) score_tracking() (in module spacr.timeflows_baseline) score_window() (in module spacr.cell_montage) Scorecard (class in spacr.seg_qc) scorecard_csv() (in module spacr.scorecard) scorecard_figure() (in module spacr.scorecard) scorecard_holdout (spacr.model_zoo.ModelEntry property) scorecard_is_present() (in module spacr.scorecard) scorecard_known (spacr.model_zoo.ModelEntry property) scorecard_lines() (spacr.model_zoo.ModelEntry method) scorecard_rows() (in module spacr.scorecard) scores_frame (spacr.qt.widgets.pca_view.PCAPanel property) scores_frame() (spacr.qt.widgets.pca_model.PCAResult method) scores_path() (in module spacr.curation_queue) scores_table() (in module spacr.timeflows_baseline) ScoreWindow (class in spacr.cell_montage) scramble() (in module spacr.timeflows_validation) scramble_test() (in module spacr.timeflows_model) Screen (class in spacr.annotation_validation) screen_data_destination() (spacr.qt.screens.app_screen.AppScreen method) screen_fields() (in module spacr.image_quality) screen_folder() (in module spacr.cli_download) screen_for() (spacr.qt.screens.train_cellpose.CellposeWorkbenchScreen method) screen_for_widget() (in module spacr.qt.hidpi) screen_id() (in module spacr.schema) screen_is_blockable() (in module spacr.ml) screen_size() (in module spacr.qt.space) screen_size_for() (in module spacr.annotation_power) screen_to_volume() (spacr.qt.widgets.gate_editor.GateCanvas method) screen_wells() (in module spacr.sp_stats) ScreenAsset (class in spacr.screen_data) ScreenDataPicker (class in spacr.qt.widgets.screen_data_picker) ScreenDesignError screens (spacr.multi_database.MergePlan property) (spacr.multi_database.SourceSummary property) screens() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) screens_were_named (spacr.multi_database.MergePlan property) Screensaver (class in spacr.qt.screensaver) ScreePlot (class in spacr.qt.widgets.pca_view) scrim_alpha() (in module spacr.qt.theme) scrim_failures() (in module spacr.qt.theme) scrim_report() (in module spacr.qt.theme) scrim_under() (in module spacr.qt.theme) scroll_host() (in module spacr.qt.widgets.section) sd() (spacr.train_compare.Series method) sd_reference_limits() (in module spacr.qt.widgets.control_chart) search() (in module spacr.qt.help_index) search_barcodes() (in module spacr.barcode_search) search_features() (in module spacr.feature_dict) search_reduction_and_clustering() (in module spacr.utils) search_roots() (spacr.qt.chaining.ChainingBar method) search_runs() (in module spacr.run_journal) search_text_for() (spacr.qt.screens.settings_model.SettingsWidgets method) searchable() (in module spacr.qt.screens.hyperparam) SearchData (class in spacr.hyperparam) SearchFigureGrid (class in spacr.qt.widgets.figure_grid) SearchHit (class in spacr.feature_dict) SearchRequest (class in spacr.qt.screens.hyperparam) SearchResult (class in spacr.hyperparam) SearchRow (class in spacr.umap_search) SearchSpace (class in spacr.hyperparam) SearchTable (class in spacr.umap_search) SearchThresholds (class in spacr.barcode_search) secondary() (in module spacr.qt.cpu_modes) secondary_object_instances() (in module spacr.qt.mask_engine) SecondaryResult (class in spacr.qt.mask_engine) Section (class in spacr.qt.widgets.section) (class in spacr.report) section() (spacr.regression_summary.RunSummary method) (spacr.report.Report method) section_body() (spacr.qt.widgets.console_panel.ConsolePanel method) section_explainer() (in module spacr.qt.screens.settings_model) section_explainer_html() (in module spacr.qt.screens.settings_model) section_for() (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) section_is_open() (spacr.qt.widgets.dock.Dock method) section_is_shown() (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) section_members() (in module spacr.qt.app) section_of() (spacr.qt.settings_search.SettingsSearchBar method) section_shows_anything() (in module spacr.qt.screens.settings_model) section_states() (in module spacr.workspace) section_text() (spacr.qt.widgets.console_panel.ConsolePanel method) section_titles() (spacr.qt.widgets.folding_summary.FoldingSummaryView method) (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) section_tooltip() (in module spacr.qt.screens.settings_model) section_tooltip_is_curated() (in module spacr.qt.screens.settings_model) SectionHeader (class in spacr.qt.widgets.dock) sections() (spacr.gene_facts.GeneFacts method) (spacr.gene_tile.GeneTile method) (spacr.qt.widgets.dock.Dock method) (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) seed (spacr.qt.widgets.preview_controls.ImageSetSampler property) seed() (spacr.qt.widgets.object_grid_binding.ObjectGridBinding method) seed_by_scaled_pairs() (in module spacr.ops_phenotype) seed_changes() (in module spacr.qt.widgets.model_share) seed_everything() (in module spacr.runctx) seed_folded() (spacr.qt.screens.make_masks.MakeMasksScreen method) seed_well_boxes() (in module spacr.qt.widgets.plaque_preview) seed_worker() (in module spacr.runctx) SeedReport (class in spacr.runctx) seek() (spacr.io.LazyCropPNG method) seekable() (spacr.io.LazyCropPNG method) seg_outlines() (in module spacr.qt.mask_engine) SegComparison (class in spacr.model_compare) Segment (class in spacr.gene_facts) segment() (in module spacr.qt.organelle_modes) segment_3d() (in module spacr.zstack) segment_4d() (in module spacr.zstack) segment_and_classify() (in module spacr.object_classifier) segment_frame() (in module spacr.qt.widgets.timelapse_preview) segment_plaque_image() (in module spacr.plaque) segment_sequence() (in module spacr.qt.widgets.timelapse_preview) segment_well() (in module spacr.qt.widgets.plaque_preview) segment_windows() (in module spacr.ops_objects) segment_with_cellpose() (in module spacr.model_compare) SegmentationBackendCombo (class in spacr.qt.model_install) SegmentationIlluminationSession (class in spacr.illumination) SegmentationViews (class in spacr.qt.widgets.segmentation_views) SegQCBanner (class in spacr.qt.prerun) select() (in module spacr.well_scope) (spacr.layers.LayerStack method) (spacr.qt.screens.model_zoo.ModelZooScreen method) (spacr.qt.screens.pipeline_graph.GraphCanvas method) (spacr.qt.screens.plate_view.PlateGridWidget method) (spacr.qt.screens.run_compare.RunCompareScreen method) (spacr.qt.widgets.gate_editor.GateTree method) select_all() (spacr.qt.widgets.pca_view.FeaturePicker method) select_bin() (spacr.qt.widgets.fast_plots.BinnedPlot method) select_column() (spacr.qt.widgets.column_picker.ColumnPickerDialog method) select_columns() (spacr.qt.screens.agreement.AgreementScreen method) (spacr.qt.widgets.column_picker.ColumnPickerDialog method) select_crops() (in module spacr.crop_source) select_disagreement() (spacr.qt.screens.agreement.AgreementScreen method) select_element() (spacr.qt.widgets.pipeline_details.PipelineDetails method) select_field() (spacr.qt.screens.model_compare.ModelCompareScreen method) (spacr.qt.screens.model_zoo.ModelZooScreen method) select_fields() (in module spacr.io) select_frame() (spacr.qt.linked_selection.LinkedSelection method) select_frame_row() (spacr.qt.widgets.fast_plots.ResultsTable method) select_from() (spacr.selection.ObjectRequest method) select_glm_family() (in module spacr.ml) select_in_rect() (spacr.qt.widgets.fast_plots.FastPlot method) select_job() (spacr.qt.screens.batch.BatchScreen method) select_key() (spacr.qt.widgets.fast_plots.ResultsTable method) select_keys() (spacr.qt.widgets.fast_plots.ResultsTable method) select_montage() (in module spacr.cell_montage) select_montage_per_guide() (in module spacr.cell_montage) select_none() (spacr.qt.widgets.pca_view.FeaturePicker method) select_point() (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) select_region() (spacr.qt.widgets.plate_map_picker.PlateMapPicker method) select_rows() (spacr.qt.screens.db_browser.DbBrowserScreen method) select_run() (spacr.qt.screens.run_history.RunHistoryScreen method) select_runs() (spacr.qt.screens.train_compare.TrainCompareScreen method) select_sql() (spacr.qt.screens.db_browser.ReadOnlyDb method) select_table() (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.widgets.column_picker.ColumnPickerDialog method) select_theme() (spacr.qt.sound_preferences.SoundPage method) select_well() (spacr.qt.screens.plate_view.PlateViewScreen method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) SelectChannels (class in spacr.utils) selected (spacr.layers.LayerStack property) selected() (spacr.qt.recipes.RecipeDialog method) (spacr.qt.widgets.pca_view.FeaturePicker method) (spacr.qt.widgets.sample_project.SampleProjectDialog method) selected_channel() (in module spacr.qt.widgets.preview_controls) selected_coefficients() (spacr.qt.widgets.cell_montage_view.CellMontageView method) selected_columns() (spacr.qt.screens.agreement.AgreementScreen method) (spacr.qt.widgets.measurement_scan_panel.ColumnRegressionPanel method) selected_count() (spacr.qt.widgets.graph_builder.GraphCanvas method) selected_entries() (spacr.qt.screens.model_zoo.ModelZooScreen method) selected_entry() (spacr.qt.widgets.model_zoo_picker.ModelZooPicker method) selected_feature() (spacr.qt.widgets.feature_explorer.FeatureExplorerPanel method) selected_gene() (spacr.qt.widgets.sweep_panel.SweepPanel method) selected_index (spacr.layers.LayerStack property) selected_index() (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) selected_job() (spacr.qt.screens.batch.BatchScreen method) selected_keys() (spacr.qt.screens.lineage.LineageScreen method) (spacr.qt.widgets.fast_plots.FastPlot method) (spacr.qt.widgets.fast_plots.ResultsTable method) (spacr.qt.widgets.regression_results.RegressionResultsPanel method) selected_kinds() (spacr.qt.screens.data_manager.DataManagerScreen method) selected_label (spacr.layers.LabelsLayer property) selected_metric() (spacr.qt.screens.train_compare.TrainCompareScreen method) selected_params() (spacr.qt.screens.hyperparam.HyperparamPanel method) selected_root() (spacr.qt.screens.project_browser.ProjectBrowserScreen method) selected_rows() (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.model_zoo.ModelZooScreen method) selected_run_ids() (spacr.qt.screens.train_compare.TrainCompareScreen method) selected_runs() (spacr.qt.screens.run_compare.RunCompareScreen method) (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) selected_tables() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) selected_tracks() (spacr.qt.curation_tool.TrackCurationPanel method) selected_trial() (spacr.qt.screens.hyperparam.HyperparamPanel method) (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) selected_well() (spacr.qt.screens.plate_view.PlateGridWidget method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) selected_well_names() (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) selected_wells() (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) Selection (class in spacr.selection) selection (spacr.qt.linked_selection.LinkedSelection property) selection() (spacr.qt.screens.hyperparam.WalkAxesDialog method) (spacr.qt.widgets.plate_map_picker.PlateMapPicker method) selection_from_arrays() (in module spacr.stream_dataset) selection_from_objects() (in module spacr.stream_dataset) selection_ink() (in module spacr.qt.theme) SelectionError selectivity_index() (in module spacr.qt.widgets.dose_response) SelectivityIndex (class in spacr.qt.widgets.dose_response) SelfAttention (class in spacr.utils) send() (spacr.qt.ai.pty_sign_in.PtySession method) send_chat() (spacr.qt.widgets.gate_console.GateConsole method) Sensitivity (class in spacr.profiler) sensitivity (spacr.classifier_quality.Confusion property) sensitivity() (in module spacr.profiler) sensitivity_by_prevalence() (in module spacr.classifier_quality) sentence() (spacr.figures.stats.Comparison method) sequence_columns (spacr.settings.BarcodeSet property) sequence_plates() (in module spacr.sim) sequencing_example_destination() (spacr.qt.screens.app_screen.AppScreen method) SequencingScaleError sequential_colours() (in module spacr.qt.widgets.graph_builder) Series (class in spacr.train_compare) series() (spacr.qt.widgets.training_monitor.TrainingMonitor method) series_for() (spacr.train_compare.Comparison method) series_labels() (spacr.qt.screens.train_compare.TrainCompareScreen method) series_with() (spacr.train_compare.Comparison method) session (spacr.qt.counting_tool.CountingPanel property) (spacr.qt.curation_tool.BrushPanel property) (spacr.qt.curation_tool.TrackCurationPanel property) SESSION_MASK_LIMIT (in module spacr.qt.widgets.live_preview) session_style() (in module spacr.qt.widgets.plaque_preview) set() (spacr.layers.CanvasLink method) (spacr.qt.widgets.gate_canvas.AxisCutoffs method) set_a_sheeted_widgets_own_rule() (in module spacr.qt.theme) set_active() (spacr.qt.screens.map_barcodes.CategoryFold method) (spacr.qt.screens.map_barcodes.CategoryFoldSet method) (spacr.qt.widgets.image_ruler.ImageRuler method) set_active_app() (spacr.qt.widgets.console_panel.ConsolePanel method) set_ai_active() (spacr.qt.widgets.console_panel.ConsolePanel method) set_ai_on_by_default() (in module spacr.qt.preferences) set_ai_provider() (spacr.qt.widgets.console_panel.ConsolePanel method) set_ambient_animation() (in module spacr.qt.preferences) set_ambient_blur() (in module spacr.qt.preferences) set_ambient_density() (in module spacr.qt.preferences) set_ambient_drift_direction() (in module spacr.qt.preferences) set_ambient_enabled() (in module spacr.qt.preferences) set_ambient_palette() (in module spacr.qt.preferences) set_ambient_resolution() (in module spacr.qt.preferences) set_ambient_size() (in module spacr.qt.preferences) set_ambient_speed() (in module spacr.qt.preferences) set_ambient_theme() (in module spacr.qt.preferences) set_analyze_class_proportion_defaults() (in module spacr.settings) set_analyze_endodyogeny_defaults() (in module spacr.settings) set_analyze_invasion_defaults() (in module spacr.settings) set_analyze_replication_defaults() (in module spacr.settings) set_anchor() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) set_anchor_axis() (spacr.qt.widgets.gate_editor.GateCanvas method) set_animating() (spacr.qt.widgets.ambient.AmbientWidget method) set_annotate_default_settings() (in module spacr.settings) set_answer() (spacr.qt.screens.image_import.AnswerModel method) set_api_app_key() (spacr.qt.widgets.api_help_label.ApiHelpLabel method) set_app_key() (spacr.qt.widgets.object_settings_grid.ObjectSettingsGrid method) set_appearance() (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView method) set_apply_callback() (spacr.qt.screens.hyperparam.HyperparamPanel method) set_arrays() (spacr.qt.widgets.segmentation_views.SegmentationViews method) set_aspect_ratio() (spacr.qt.widgets.fast_plots.FastPlot method) set_auto_file_issues() (in module spacr.qt.ai.settings) set_axis_cutoffs() (spacr.qt.screens.gate_editor.GateEditorScreen method) set_axis_limits() (spacr.qt.widgets.fast_plots.FastPlot method) set_axis_scale() (spacr.qt.screens.gate_editor.GateEditorScreen method) set_backdrop() (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) set_background_color() (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) set_baseline() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) set_basis() (spacr.qt.widgets.class_editor.ClassEditorWidget method) set_biplot() (spacr.qt.widgets.pca_view.PCAScoresCanvas method) set_blur() (spacr.qt.widgets.ambient.AmbientWidget method) set_bounds() (spacr.qt.screens.make_masks.ObjectFilterList method) set_box_heights() (spacr.qt.widgets.measurement_scan_panel.WorkflowSteps method) set_busy() (spacr.qt.widgets.activity_spinner.ActivitySpinner method) set_button_busy() (in module spacr.qt.button_roles) set_cache_ceiling_mb() (in module spacr.qt.preferences) set_canvas_shape() (spacr.qt.widgets.fast_plots.FastPlot method) set_cell_variant() (in module spacr.qt.preferences) set_channel() (spacr.qt.widgets.graph_builder.GraphCanvas method) (spacr.qt.widgets.trellis_view.TrellisCanvas method) set_channel_visible() (spacr.layers.ImageLayer method) set_chosen() (spacr.qt.widgets.provider_marks.ProviderMark method) set_coefficient() (spacr.qt.widgets.cell_montage_view.CellMontageView method) set_coefficients() (spacr.qt.widgets.cell_montage_view.CellMontageView method) set_collapsed() (spacr.qt.widgets.collapsible_splitter.CollapsibleSplitter method) set_color() (spacr.qt.widgets.dna_rain.DnaRainSettingsBar method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) set_color_blind_mode() (in module spacr.qt.preferences) set_colormap() (spacr.layers.ImageLayer method) set_colour_source() (spacr.qt.widgets.gate_editor.GateTree method) set_column() (spacr.qt.widgets.graph_builder.DropZone method) set_column_filter() (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.db_browser.PreviewModel method) set_column_width() (spacr.qt.widgets.dock.Dock method) set_columns() (spacr.qt.widgets.pivot_builder.DropWell method) set_commit_hook() (spacr.qt.screens.db_browser.PreviewModel method) set_compartment() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) set_confirmation_runner() (spacr.qt.recipes.RecipeDialog method) set_console_aware() (in module spacr.qt.ai.settings) set_console_font_pt() (spacr.qt.widgets.console_panel.ConsolePanel method) set_content() (spacr.qt.widgets.home.NewsPanel method) set_contrast_limits() (spacr.layers.ImageLayer method) set_correction() (spacr.qt.widgets.fast_plots.VolcanoPlot method) set_crops() (spacr.qt.screens.embeddings.EmbeddingsScreen method) set_curve() (spacr.qt.screens.power.PowerCurveView method) (spacr.qt.screens.profiler.CurveCanvas method) set_custom_regex() (spacr.qt.screens.foreign.ForeignScreen method) set_dashboard_watermark() (in module spacr.qt.preferences) set_data() (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) set_database() (spacr.qt.screens.agreement.AgreementScreen method) (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.image_scatter.ImageScatterScreen method) set_database_provider() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) set_db_browser_editable() (in module spacr.qt.preferences) set_default_analyze_screen() (in module spacr.settings) set_default_classify() (in module spacr.settings) set_default_generate_barecode_mapping() (in module spacr.settings) set_default_graph_type() (in module spacr.qt.preferences) set_default_mode() (in module spacr.workspace) set_default_plot_data_from_db() (in module spacr.settings) set_default_plot_merge_settings() (in module spacr.settings) set_default_settings_preprocess_generate_masks() (in module spacr.settings) set_default_settings_preprocess_img_data() (in module spacr.settings) set_default_train_test_model() (in module spacr.settings) set_default_umap_image_settings() (in module spacr.settings) set_delay_ms() (spacr.qt.widgets.activity_spinner.ActivitySpinner method) set_density() (spacr.qt.widgets.ambient.AmbientWidget method) set_dependent_frame() (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) set_depth() (spacr.qt.layer_viewer.LayerCanvas method) set_design() (spacr.qt.screens.profiler.ProfilerScreen method) set_destination() (spacr.qt.screens.convert.ConvertScreen method) (spacr.qt.screens.data_manager.DataManagerScreen method) (spacr.qt.screens.foreign.ForeignScreen method) (spacr.qt.screens.image_import.ImageImportScreen method) (spacr.qt.screens.measure_inputs.MeasureInputsScreen method) set_detail() (spacr.qt.widgets.eliding.ProgressLine method) set_diagnostics() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) set_dialog_runner() (spacr.qt.widgets.column_picker.ColumnPickerButton method) set_dimension() (spacr.qt.screens.app_screen.AppScreen method) set_direction() (spacr.qt.widgets.ambient.AmbientWidget method) set_dock_mode() (in module spacr.qt.preferences) set_dock_width() (in module spacr.qt.preferences) set_drag_mode() (spacr.qt.widgets.gate_editor.GateCanvas method) set_editable() (spacr.qt.screens.db_browser.PreviewModel method) set_effects() (spacr.qt.widgets.fast_plots.EffectDistribution method) set_embedding() (spacr.qt.widgets.annotation_umap_tab.PurityScatter method) (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView method) set_enabled() (spacr.qt.widgets.drawer.EdgeDrawer method) set_entries() (spacr.qt.screens.model_zoo.ModelZooScreen method) set_expanded() (spacr.qt.widgets.collapsible_section.CollapsibleSection method) (spacr.qt.widgets.measurement_scan_panel.WorkflowStep method) (spacr.qt.widgets.section.Section method) set_export_size() (spacr.qt.widgets.fast_plots.FastPlot method) set_fetch_hook() (spacr.qt.screens.db_browser.PreviewModel method) set_field_fade_enabled() (in module spacr.qt.preferences) set_field_text() (in module spacr.qt.widgets.column_picker) set_field_values() (in module spacr.qt.widgets.column_picker) set_fields() (spacr.qt.widgets.timelapse_movie.TimelapseMoviePanel method) set_fields_source() (spacr.qt.screens.model_zoo.ModelZooScreen method) set_figure_colors() (in module spacr.qt.preferences) set_figure_colors_auto() (in module spacr.qt.preferences) set_figure_dynamic() (in module spacr.qt.preferences) set_figure_format() (in module spacr.qt.preferences) set_figure_grid_size() (in module spacr.qt.preferences) set_figure_line_colour() (in module spacr.qt.preferences) set_figure_live_cache() (in module spacr.qt.preferences) set_figure_png_dpi() (in module spacr.qt.preferences) set_figure_save_mode() (in module spacr.qt.preferences) set_figure_style() (in module spacr.qt.preferences) set_figure_style_default() (in module spacr.qt.preferences) set_figure_style_per_graph() (in module spacr.qt.preferences) set_figure_text_size() (in module spacr.qt.preferences) set_figure_text_size_override() (in module spacr.qt.widgets.figure_queue) set_figures() (spacr.qt.widgets.figure_grid_view.FigureGridView method) set_file_picker() (spacr.qt.widgets.measure_input_table.MeasureInputTable method) set_file_sink() (in module spacr.figure_sink) set_files() (spacr.qt.widgets.import_workbench.ImportWorkbench method) set_filter() (spacr.qt.linked_selection.LinkedSelection method) (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.make_masks.ObjectFilterList method) set_filters() (spacr.qt.screens.make_masks.ObjectFilterList method) set_fold_mode() (spacr.qt.screens.train_compare.TrainCompareScreen method) set_folded() (spacr.qt.widgets.collapsible_splitter.FoldSection method) set_folded_panel() (in module spacr.qt.preferences) set_font_colour() (spacr.qt.widgets.fast_plots.FastPlot method) set_font_scale() (in module spacr.qt.preferences) set_font_size() (spacr.qt.widgets.dna_rain.DnaRainEngine method) (spacr.qt.widgets.dna_rain.DnaRainSettingsBar method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) (spacr.qt.widgets.fast_plots.FastPlot method) set_for_path() (spacr.qt.widgets.preview_controls.ImageSetSampler method) set_format() (spacr.qt.screens.report.ReportScreen method) set_formulas() (spacr.qt.widgets.formula_editor.FormulaPanel method) set_fps() (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) (spacr.qt.widgets.timelapse_movie.FovMovie method) (spacr.qt.widgets.timelapse_movie.TimelapseMoviePanel method) set_fractal_settings() (in module spacr.qt.preferences) set_frame() (spacr.qt.screens.control_chart.ControlChartScreen method) (spacr.qt.screens.convert.PlanTableModel method) (spacr.qt.screens.dose_response.DoseResponseScreen method) (spacr.qt.screens.feature_explorer.FeatureExplorerScreen method) (spacr.qt.screens.gate_editor.GateEditorScreen method) (spacr.qt.screens.graph_builder.GraphBuilderScreen method) (spacr.qt.screens.image_scatter.ImageScatterScreen method) (spacr.qt.screens.outliers.OutliersScreen method) (spacr.qt.screens.pca.PCAScreen method) (spacr.qt.screens.tabulate.TabulateScreen method) (spacr.qt.screens.trellis.TrellisScreen method) (spacr.qt.widgets.annotation_umap_tab.AnnotationUmapTab method) (spacr.qt.widgets.class_editor.ClassEditorWidget method) (spacr.qt.widgets.data_filter_panel.DataFilterPanel method) (spacr.qt.widgets.fast_plots.ResultsTable method) (spacr.qt.widgets.feature_explorer.FeatureExplorerPanel method) (spacr.qt.widgets.formula_editor.FormulaPanel method) (spacr.qt.widgets.gate_console.GateConsole method) (spacr.qt.widgets.gate_editor.GateEditorPanel method) (spacr.qt.widgets.graph_builder.ColumnWell method) (spacr.qt.widgets.graph_builder.GraphBuilderPanel method) (spacr.qt.widgets.graph_builder.GraphCanvas method) (spacr.qt.widgets.pca_view.FeaturePicker method) (spacr.qt.widgets.pca_view.PCAPanel method) (spacr.qt.widgets.pivot_builder.PivotPanel method) (spacr.qt.widgets.regression_results.RegressionResultsPanel method) (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) (spacr.qt.widgets.trellis_view.TrellisPanelWidget method) set_frame_provider() (spacr.qt.widgets.gene_panel.GenePanel method) (spacr.qt.widgets.gene_tile.GeneTilePanel method) (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) set_frames() (spacr.qt.screens.lineage.LineageScreen method) (spacr.qt.widgets.timelapse_movie.FilmStrip method) set_gate_enabled() (spacr.qt.widgets.gate_editor.GateCanvas method) set_gates() (spacr.qt.widgets.gate_editor.GateCanvas method) (spacr.qt.widgets.gate_editor.GateEditorPanel method) (spacr.qt.widgets.gate_editor.GateTree method) set_generate_dataset_defaults() (in module spacr.settings) set_generate_training_dataset_defaults() (in module spacr.settings) set_graph() (spacr.qt.screens.pipeline_graph.GraphCanvas method) set_graph_importance_defaults() (in module spacr.settings) set_grid() (spacr.qt.widgets.fast_plots.FastPlot method) set_group_object_type() (spacr.qt.widgets.external_mask_inputs.ExternalMaskInputWidget method) set_group_role() (spacr.qt.widgets.external_mask_inputs.ExternalMaskInputWidget method) set_groups() (spacr.qt.widgets.fast_plots.ControlSeparation method) set_gui_scale() (in module spacr.qt.preferences) set_gui_scale_live() (in module spacr.qt.gui_scale) set_hash_inputs() (in module spacr.qt.preferences) set_headroom_mb() (in module spacr.qt.preferences) set_held() (spacr.qt.screens.profiler.ProfilerScreen method) set_hidden_value() (spacr.qt.screens.settings_model.SettingsWidgets method) set_hint() (spacr.qt.widgets.section.Section method) set_idle_minutes() (in module spacr.qt.preferences) set_images() (spacr.qt.screens.foreign.ForeignScreen method) set_index() (spacr.qt.help_search.HelpSearchField method) set_influence() (spacr.qt.widgets.fast_plots.InfluencePlot method) set_install_handler() (spacr.qt.widgets.availability_panel.AvailabilityPanel method) set_intensity_available() (spacr.qt.screens.make_masks.ObjectFilterList method) set_interface_font_weight() (in module spacr.qt.preferences) set_interpret_vision_model_defaults() (in module spacr.settings) set_issue_prompt_mode() (in module spacr.qt.preferences) set_key() (in module spacr.qt.ai.keys) set_keys() (spacr.qt.widgets.fast_plots.FastPlot method) set_labels() (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView method) set_labels_at() (spacr.layers.LabelsLayer method) set_language() (in module spacr.qt.preferences) set_laptop_mode() (in module spacr.qt.preferences) set_last_source() (in module spacr.qt.prefs) set_layout_mode() (spacr.qt.screens.convert.ConvertScreen method) set_layout_size() (spacr.qt.widgets.plate_map_picker.PlateMapPicker method) set_level() (spacr.qt.settings_search.SettingsSearchBar method) (spacr.qt.widgets.regression_results.RegressionResultsPanel method) set_line_colour() (spacr.qt.widgets.fast_plots.FastPlot method) set_line_style() (spacr.qt.widgets.fast_plots.FastPlot method) set_link() (spacr.qt.screens.image_import.ImageImportScreen method) set_live_canvas_enabled() (spacr.qt.widgets.figure_queue.FigureQueue method) set_live_tiles() (spacr.qt.widgets.figure_grid_view.FigureGridView method) set_loaded_run() (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) set_log_axes() (spacr.qt.widgets.fast_plots.FastPlot method) set_log_levels() (in module spacr.qt.preferences) set_mapping_value() (spacr.qt.screens.foreign.ForeignScreen method) set_maps() (spacr.qt.screens.foreign.ColumnMapModel method) set_mark() (spacr.qt.widgets.fast_plots.GroupedPlot method) set_maturity() (spacr.qt.widgets.section.Section method) set_max() (spacr.qt.widgets.preview_controls.ImageSetSampler method) set_max_fields() (spacr.qt.widgets.timelapse_movie.TimelapseMoviePanel method) set_measurements() (spacr.qt.screens.foreign.ForeignScreen method) set_menu_role() (in module spacr.qt.menus) set_menu_runner() (in module spacr.qt.widgets.feature_dictionary) set_metadata_files() (spacr.qt.screens.hit_list.HitListScreen method) set_metadata_type() (spacr.qt.screens.foreign.ForeignScreen method) set_metric() (spacr.qt.screens.train_compare.TrainCompareScreen method) set_mode() (spacr.qt.widgets.gate_editor.GateCanvas method) (spacr.qt.widgets.gate_settings.GateSettingsDialog method) (spacr.qt.widgets.picture_settings_dialog.PictureSettingsDialog method) (spacr.qt.widgets.plaque_preview.PlaqueModeSwitch method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) set_model() (spacr.qt.screens.profiler.ProfilerScreen method) set_modified_only() (spacr.qt.settings_search.SettingsSearchBar method) set_montage_columns() (in module spacr.qt.preferences) set_more() (spacr.qt.screens.db_browser.PreviewModel method) set_name() (spacr.qt.widgets.column_picker.ColumnPickerDialog method) set_namer() (spacr.qt.widgets.gate_editor.GateEditorPanel method) set_news_height() (in module spacr.qt.preferences) set_now_playing() (in module spacr.qt.resonance) set_object_grid_enabled() (in module spacr.qt.preferences) set_on() (spacr.qt.widgets.model_zoo_picker.SourceStrip method) set_on_conflict() (spacr.qt.screens.foreign.ForeignScreen method) set_opacity() (spacr.qt.widgets.dna_rain.DnaRainSettingsBar method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) set_open_minimum() (spacr.qt.widgets.collapsible_section.CollapsibleSection method) set_opener() (spacr.qt.screens.model_zoo.ModelZooScreen method) set_organelle_count() (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) set_output() (spacr.qt.screens.report.ReportScreen method) set_overlay_style() (spacr.qt.widgets.plaque_preview.PlaqueOverlayDialog method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) set_overlays() (spacr.qt.widgets.timelapse_movie.FovMovie method) set_p_axis() (spacr.qt.widgets.fast_plots.VolcanoPlot method) set_p_value_kind() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) set_p_values() (spacr.qt.widgets.fast_plots.PValueHistogram method) (spacr.qt.widgets.fast_plots.QQPlot method) set_page() (spacr.qt.screens.db_browser.PreviewModel method) set_palette() (spacr.qt.widgets.ambient.AmbientWidget method) set_pane_extents() (in module spacr.qt.widgets.collapsible_splitter) set_pane_opacity() (in module spacr.qt.preferences) set_parameters() (spacr.qt.widgets.figure_grid.SearchFigureGrid method) set_paths() (spacr.qt.screens.make_masks.NapariBridgeScreen method) set_payload() (spacr.qt.widgets.umap_explorer.ImageUmapExplorer method) set_pending_depth() (spacr.qt.widgets.gate_editor.GateCanvas method) set_percent() (spacr.qt.widgets.preview_scale.PreviewScaleControl method) set_performance_level() (in module spacr.qt.preferences) set_performance_logging() (in module spacr.qt.preferences) set_photo_provider() (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) set_picture_name() (spacr.qt.widgets.segmentation_views.PictureCanvas method) set_pinned() (spacr.qt.widgets.figure_grid_view.FigureGridView method) set_pipeline() (spacr.qt.widgets.pipeline_details.PipelineDetails method) set_pixel_size() (spacr.qt.screens.foreign.ForeignScreen method) set_pixmap() (spacr.qt.widgets.zoom_view.ZoomableImageView method) set_placeholder() (spacr.qt.screens.plate_view.PlateGridWidget method) set_plan() (spacr.qt.screens.align.TileLayoutWidget method) (spacr.qt.screens.image_import.AnswerModel method) (spacr.qt.screens.image_import.ProposalModel method) set_plane() (spacr.qt.layer_viewer.LayerCanvas method) set_plate() (spacr.qt.screens.plate_view.PlateGridWidget method) set_plate_name() (spacr.qt.screens.image_import.ImageImportScreen method) set_plate_naming() (spacr.qt.screens.convert.ConvertScreen method) set_points() (spacr.qt.screens.image_scatter.ScatterCanvas method) set_popup_backdrop() (in module spacr.qt.preferences) set_preferred_provider() (in module spacr.qt.preferences) set_preload_policy() (in module spacr.qt.preferences) set_preview_busy() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) (spacr.qt.widgets.preview_contract.LivePreviewContract method) set_preview_scale() (in module spacr.qt.widgets.preview_scale) set_preview_status() (spacr.qt.widgets.preview_contract.LivePreviewContract method) set_project() (spacr.qt.screens.data_manager.DataManagerScreen method) set_projection_active() (spacr.qt.widgets.gate_editor.GateEditorPanel method) set_propagate_callback() (spacr.qt.widgets.figure_queue.FigureQueue method) (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) (spacr.qt.widgets.umap_explorer.ImageUmapExplorer method) set_q_colour() (spacr.qt.widgets.fast_plots.VolcanoPlot method) set_q_mark() (spacr.qt.widgets.fast_plots.VolcanoPlot method) set_query() (spacr.qt.settings_search.SettingsSearchBar method) (spacr.qt.widgets.feature_dictionary.FeatureDictionaryPanel method) set_random_color() (spacr.qt.widgets.dna_rain.DnaRainSettingsBar method) set_random_colors() (spacr.qt.widgets.dna_rain.DnaRainWidget method) set_raw_filter() (spacr.qt.screens.db_browser.DbBrowserScreen method) set_read_inside() (spacr.qt.screens.image_import.ImageImportScreen method) set_reads() (spacr.qt.widgets.read_view.ReadView method) set_refresh_news() (in module spacr.qt.preferences) set_regex() (spacr.qt.widgets.measure_input_table.MeasureInputTable method) set_renderer() (spacr.qt.widgets.segmentation_views.SegmentationViews method) set_reserved_content() (spacr.qt.widgets.home.HomePage method) set_residuals() (spacr.qt.widgets.fast_plots.ResidualPlot method) set_resolution() (spacr.qt.widgets.ambient.AmbientWidget method) set_responder() (spacr.qt.widgets.gate_console.GateConsole method) set_response_speed() (in module spacr.qt.ai.settings) set_result() (spacr.qt.screens.control_chart.ControlChartCanvas method) (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) (spacr.qt.widgets.pca_view.PCAScoresCanvas method) (spacr.qt.widgets.pca_view.ScreePlot method) (spacr.qt.widgets.pivot_builder.PivotTable method) set_results() (spacr.qt.widgets.fast_plots.EffectRankPlot method) (spacr.qt.widgets.fast_plots.VolcanoPlot method) (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) set_resume() (spacr.qt.screens.convert.ConvertScreen method) set_rim_alignment() (in module spacr.qt.preferences) set_rim_lag() (in module spacr.qt.preferences) set_rim_length() (in module spacr.qt.preferences) set_rim_mode() (in module spacr.qt.preferences) set_rim_period() (in module spacr.qt.preferences) set_roi_path() (spacr.qt.roi_tool.RoiPanel method) set_root() (spacr.qt.screens.image_import.ImageImportScreen method) set_route_errors_through_ai() (in module spacr.qt.ai.settings) set_rows() (spacr.qt.widgets.metadata_table.MetadataTablePanel method) set_run_context() (spacr.qt.widgets.console_panel.ConsolePanel method) set_run_settings() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) set_runner() (spacr.qt.screens.batch.BatchScreen method) set_runtime_text_scale() (in module spacr.qt.preferences) set_sample() (spacr.qt.screens.image_import.ImageImportScreen method) set_save_workspace() (in module spacr.qt.preferences) set_scale() (spacr.qt.live_zoom.ColumnTextScale method) (spacr.qt.widgets.preview_scale.PreviewScaler method) set_scale_location() (spacr.qt.widgets.fast_plots.ScaleLocationPlot method) set_screen_size() (spacr.qt.widgets.fast_plots.FastPlot method) set_search_fn() (spacr.qt.screens.hyperparam.HyperparamPanel method) set_section_collapsed() (spacr.qt.widgets.figure_grid_view.FigureGridView method) set_section_expanded() (spacr.qt.widgets.folding_summary.FoldingSummaryView method) (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) set_section_layout() (in module spacr.qt.preferences) set_segment_fn() (spacr.qt.screens.model_compare.ModelCompareScreen method) (spacr.qt.screens.model_zoo.ModelZooScreen method) set_selected() (spacr.qt.screens.image_scatter.ScatterCanvas method) (spacr.qt.widgets.pca_view.FeaturePicker method) set_selected_columns() (spacr.qt.widgets.measurement_scan_panel.ColumnRegressionPanel method) set_selected_guides() (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) set_selected_tables() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) set_selected_wells() (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) set_selection() (spacr.qt.linked_selection.LinkedSelection method) (spacr.qt.widgets.plate_map_picker.PlateMapPicker method) set_sequence() (spacr.qt.widgets.timelapse_movie.FovMovie method) set_setting_animations_enabled() (in module spacr.qt.preferences) set_settings() (spacr.qt.widgets.object_settings_grid.ObjectSettingsGrid method) set_settings_provider() (spacr.qt.screens.hyperparam.HyperparamPanel method) set_share_diagnostic_logs() (in module spacr.qt.preferences) set_show_alpha() (in module spacr.qt.preferences) set_show_beta() (in module spacr.qt.preferences) set_shut() (spacr.qt.widgets.foldable.Folder method) set_sink() (in module spacr.figure_sink) set_size() (spacr.layers.PointsLayer method) set_size_scale() (spacr.qt.widgets.ambient.AmbientWidget method) set_sound_enabled() (in module spacr.qt.preferences) set_sound_event_enabled() (in module spacr.qt.preferences) set_sound_music_file() (in module spacr.qt.preferences) set_sound_theme() (in module spacr.qt.preferences) set_sound_volume() (in module spacr.qt.preferences) set_source() (spacr.qt.screens.convert.ConvertScreen method) (spacr.qt.screens.model_compare.ModelCompareScreen method) (spacr.qt.screens.qc_dashboard.QCDashboardScreen method) (spacr.qt.screens.report.ReportScreen method) (spacr.qt.widgets.row_exclusion.RowExclusionEditor method) set_source_app() (spacr.qt.widgets.section.Section method) set_spaceout_drift_seconds() (in module spacr.qt.theme) set_spacing() (spacr.qt.widgets.image_ruler.ImageRuler method) set_spacr_mode() (in module spacr.qt.preferences) set_spec() (spacr.qt.screens.power.PowerScreen method) (spacr.qt.screens.trellis.TrellisScreen method) (spacr.qt.widgets.feature_explorer.FeatureExplorerPanel method) (spacr.qt.widgets.gate_editor.GateEditorPanel method) (spacr.qt.widgets.graph_builder.GraphBuilderPanel method) (spacr.qt.widgets.graph_builder.GraphCanvas method) (spacr.qt.widgets.pivot_builder.PivotPanel method) (spacr.qt.widgets.trellis_view.TrellisCanvas method) (spacr.qt.widgets.trellis_view.TrellisPanelWidget method) set_speed() (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.dna_rain.DnaRainSettingsBar method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) set_speed_multiplier() (spacr.qt.widgets.dna_rain.DnaRainEngine method) set_spin_axis() (spacr.qt.widgets.gate_editor.GateCanvas method) set_spin_controls_visible() (spacr.qt.widgets.gate_editor.GateEditorPanel method) set_spinner_delay() (in module spacr.qt.preferences) set_split_sizes() (spacr.qt.widgets.console_panel.ConsolePanel method) set_split_state() (in module spacr.qt.widgets.console_panel) set_stack() (spacr.qt.layer_viewer.LayerCanvas method) (spacr.qt.ortho_view.OrthoView method) set_stage() (spacr.qt.widgets.fold_strip.FoldButton method) set_status() (spacr.qt.screens.foreign.ColumnMapModel method) (spacr.qt.widgets.fast_plots.FastPlot method) (spacr.run_journal.Run method) set_status_note() (spacr.qt.widgets.fast_plots.FastPlot method) set_step_folds() (spacr.qt.widgets.measurement_scan_panel.WorkflowSteps method) set_stored_token() (in module spacr.qt.ai.github_auth) set_strategy() (spacr.qt.widgets.annotation_strategy_panel.AnnotationStrategyPanel method) set_strip_open() (spacr.qt.widgets.timelapse_movie.FovMovie method) set_style() (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) set_style_note() (spacr.qt.widgets.fast_plots.FastPlot method) set_summary() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) set_support() (spacr.qt.widgets.fast_plots.GuideAgreementPlot method) set_system_prompt() (in module spacr.qt.ai.settings) set_table() (spacr.qt.screens.plate_view.PlateViewScreen method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsModel method) set_target_cell_width() (spacr.qt.widgets.figure_grid_view.FigureGridView method) set_theme() (in module spacr.qt.preferences) (spacr.qt.widgets.ambient.AmbientWidget method) set_theme_choice() (in module spacr.qt.preferences) set_threshold_method() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) set_threshold_multiplier() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) set_tile_policy() (spacr.qt.screens.image_import.ImageImportScreen method) set_tiles_as_fields() (spacr.qt.screens.image_import.ImageImportScreen method) set_time() (spacr.qt.widgets.ambient.AmbientWidget method) set_timing_threshold_ms() (in module spacr.logging_util) set_tool() (spacr.qt.layer_viewer.LayerCanvas method) (spacr.qt.widgets.gate_editor.GateCanvas method) set_tooltips_bottom_enabled() (in module spacr.qt.preferences) set_tooltips_box_enabled() (in module spacr.qt.preferences) set_tooltips_enabled() (in module spacr.qt.preferences) set_total() (spacr.qt.widgets.loading_screen.LoadingScreen method) set_tracks() (spacr.qt.curation_tool.TrackCurationPanel method) set_translatable_items() (in module spacr.qt.i18n) set_translatable_text() (in module spacr.qt.i18n) set_trellis_spec() (spacr.qt.widgets.trellis_view.TrellisCanvas method) set_trials() (spacr.qt.widgets.umap_search_viewer.UmapGalleryDialog method) set_url() (spacr.qt.widgets.api_help_label.ApiHelpLabel method) (spacr.qt.widgets.info_link.InfoLink method) set_user_height() (spacr.qt.widgets.object_settings_grid.ObjectSettingsGrid method) set_value() (spacr.qt.screens.db_browser.PreviewModel method) (spacr.qt.widgets.barcode_regex.BarcodeRegexWidget method) (spacr.qt.widgets.channel_mapping.ChannelMappingWidget method) (spacr.qt.widgets.channel_picker.ChannelPicker method) (spacr.qt.widgets.class_editor.ClassEditorWidget method) (spacr.qt.widgets.database_set.DatabaseSetWidget method) (spacr.qt.widgets.external_mask_inputs.ExternalMaskInputWidget method) (spacr.qt.widgets.file_list.FilePathListWidget method) (spacr.qt.widgets.file_list.PairedFileTableWidget method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsGrid method) (spacr.qt.widgets.percentile_pair.PercentilePair method) (spacr.qt.widgets.row_exclusion.RowExclusionEditor method) (spacr.qt.widgets.usage_bar.UsageBar method) set_value_column() (spacr.qt.screens.plate_view.PlateViewScreen method) set_value_for_key() (spacr.qt.screens.settings_model.SettingsWidgets method) set_verbose_logging() (in module spacr.qt.preferences) set_verdict() (spacr.qt.widgets.fold_strip.FoldButton method) set_view() (spacr.qt.widgets.segmentation_views.SegmentationViews method) set_volume_shape() (spacr.qt.widgets.gate_editor.GateCanvas method) set_walk_axes() (spacr.qt.screens.hyperparam.HyperparamPanel method) set_widget_qss_context() (in module spacr.qt.theme) set_workspace_copy_limit_mb() (in module spacr.qt.preferences) set_y_split() (spacr.qt.widgets.fast_plots.FastPlot method) set_z_handling() (spacr.qt.screens.convert.ConvertScreen method) setChecked() (spacr.qt.widgets.ai_toggle_label.AiToggleLabel method) setCurrentText() (spacr.qt.model_install.SegmentationBackendCombo method) (spacr.qt.model_install.SpotDetectorCombo method) setData() (spacr.qt.screens.db_browser.PreviewModel method) (spacr.qt.screens.foreign.ColumnMapModel method) (spacr.qt.screens.image_import.AnswerModel method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsModel method) (spacr.qt.widgets.sortable_table.SortableTableItem method) setFormat() (spacr.qt.widgets.eliding.ProgressLine method) setGeometry() (spacr.qt.widgets.column_aligned_row.ColumnAlignedRow method) (spacr.qt.widgets.flow.FlowLayout method) setMaximum() (spacr.qt.widgets.eliding.ProgressLine method) setMinimum() (spacr.qt.widgets.eliding.ProgressLine method) setPlainText() (spacr.qt.widgets.folding_summary.FoldingSummaryView method) setRange() (spacr.qt.widgets.eliding.ProgressLine method) setReadOnly() (spacr.qt.widgets.folding_summary.FoldingSummaryView method) sets (spacr.qt.widgets.preview_controls.ImageSetSampler property) sets_from_paths() (in module spacr.qt.widgets.preview_controls) setText() (spacr.qt.widgets.ai_toggle_label.AiToggleLabel method) (spacr.qt.widgets.api_help_label.ApiHelpLabel method) (spacr.qt.widgets.channel_picker.ChannelPicker method) (spacr.qt.widgets.eliding.ElidingLabel method) (spacr.qt.widgets.eliding.ElidingPushButton method) (spacr.qt.widgets.percentile_pair.PercentilePair method) setTextVisible() (spacr.qt.widgets.eliding.ProgressLine method) setting_animations() (in module spacr.setting_animations) setting_category() (in module spacr.qt.settings_diff) setting_dimension() (in module spacr.qt.screens.app_screen) setting_entries() (in module spacr.qt.help_index) setting_label() (in module spacr.object_roles) setting_name() (in module spacr.qt.detect_chain) setting_row_is_visible() (spacr.qt.screens.app_screen.AppScreen method) SettingAnimation (class in spacr.setting_animations) SettingAnimationError Settings (class in spacr.qt.widgets.fractal_travel) settings (spacr.qt.sound.SoundEngine property) settings() (spacr.qt.screens.align.AlignScreen method) (spacr.qt.screens.gate_editor.GateEditorScreen method) (spacr.qt.widgets.gate_settings.GateSettingsDialog method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsGrid method) (spacr.qt.widgets.refit_dialog.RefitDialog method) settings_bar (spacr.qt.widgets.dna_rain_settings.DnaSettingsButton property) settings_filters() (in module spacr.qt.mask_engine) settings_for_basis() (in module spacr.training_basis) settings_for_method() (in module spacr.stream_dataset) settings_for_my_data() (spacr.qt.screens.app_screen.AppScreen method) settings_for_propagation() (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) settings_from_pack() (in module spacr.qt.settings_pack) settings_hash() (in module spacr.artifacts) settings_line() (spacr.cell_montage.MontagePlan method) settings_of_run() (in module spacr.refit) settings_path (spacr.batch.Job property) settings_section_maturity() (in module spacr.qt.screens.app_screen) settings_shown() (spacr.qt.screens.make_masks.MakeMasksScreen method) SettingsAdvisorDialog (class in spacr.qt.widgets.settings_advisor_dialog) SettingsComparison (class in spacr.resume) SettingsDiff (class in spacr.qt.settings_diff) SettingsDiffDialog (class in spacr.qt.settings_diff) SettingsError SettingsSearchBar (class in spacr.qt.settings_search) SettingsSection (class in spacr.qt.screens.settings_model) SettingsWidgets (class in spacr.qt.screens.settings_model) settle() (in module spacr.qt.resonance) (spacr.qt.live_zoom.LiveZoomFilter method) setup_logging() (in module spacr.logging_util) (in module spacr.qt.logging_util) setup_plot() (in module spacr.utils) SetupCard (class in spacr.qt.widgets.setup_card) SetupDialog (class in spacr.qt.widgets.setup_dialog) SetupSlides (class in spacr.qt.widgets.setup_slides) setValue() (spacr.qt.widgets.eliding.ProgressLine method) sew() (in module spacr.ops_objects) sha256_file() (in module spacr.model_zoo) shading_thread_alive() (spacr.qt.widgets.ambient.AmbientWidget method) shap_analysis() (in module spacr.ml) Shape (class in spacr.layers) shape (spacr.align.CanvasSpec property) (spacr.attribution.Attribution property) (spacr.crops.MergedField property) (spacr.illumination.IlluminationField property) (spacr.layers.ImageLayer property) (spacr.layers.LabelsLayer property) (spacr.layers.Layer property) (spacr.ome_zarr.OmeZarrImage property) (spacr.qt.widgets.dose_response.Checkerboard property) (spacr.qt.widgets.graph_spec.FacetGrid property) (spacr.qt.widgets.pivot_spec.PivotResult property) (spacr.qt.widgets.plate_layout.PlateDesign property) shape() (in module spacr.well_spec) (spacr.qt.widgets.grouped_plot.PlotSpec method) shape_by_column() (spacr.qt.widgets.fast_plots.FastPlot method) shape_columns() (spacr.qt.widgets.fast_plots.FastPlot method) shape_of() (in module spacr.figures.distributions) (in module spacr.graph_types) (in module spacr.regex_infer) shape_reason() (spacr.qt.widgets.fast_plots.FastPlot method) ShapeContract (class in spacr.ports) shapes (spacr.layers.ShapesLayer property) ShapesLayer (class in spacr.layers) share() (in module spacr.qt.widgets.model_share) shared_catalogue() (in module spacr.model_zoo) shared_catalogue_is_stale() (in module spacr.model_zoo) shared_limits() (in module spacr.figures.plates) (in module spacr.regression_panels) shared_plates_across_screens (spacr.plate_measurements.PlateMerge property) shared_with() (spacr.style_base.FigureStyle method) ShareDialog (class in spacr.qt.widgets.model_share_dialog) shares_everything (spacr.qt.widgets.trellis_spec.TrellisSpec property) Sheet (class in spacr.figures.sheet) shift (spacr.ops_register.Registration property) short() (spacr.errors.Failure method) ShortcutOverlay (class in spacr.qt.shortcuts) ShortcutSpec (class in spacr.qt.shortcuts) should_open() (in module spacr.qt.setup_screen) should_start_without_the_backdrop() (in module spacr.qt.crash_recovery) should_stop() (in module spacr.active_learning) show_aggregation_rules() (spacr.qt.screens.gate_editor.GateEditorScreen method) (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) show_api_entry() (in module spacr.qt.help_search) show_as() (spacr.qt.widgets.grouped_plot.GroupedPlot method) show_as_page() (in module spacr.qt.screens.map_barcodes) show_as_window() (in module spacr.qt.screens.map_barcodes) show_cam_on_image() (in module spacr.utils) show_canvas() (spacr.qt.ortho_view.OrthoPanel method) show_category_hint() (spacr.qt.screens.app_screen.AppScreen method) show_cell() (spacr.qt.screens.classifier_evaluation.ClassifierEvaluationScreen method) show_cheat_sheet() (in module spacr.qt.shortcuts) show_column() (spacr.qt.widgets.feature_dictionary.FeatureDictionaryDialog method) (spacr.qt.widgets.feature_dictionary.FeatureDictionaryPanel method) show_comparison() (spacr.qt.widgets.live_preview.LivePreviewPanel method) show_detail() (spacr.qt.screens.project_browser.ProjectBrowserScreen method) show_entry() (spacr.qt.widgets.availability_panel.AvailabilityPanel method) show_feature() (spacr.qt.widgets.gene_panel.GenePanel method) (spacr.qt.widgets.gene_tile.GeneTilePanel method) show_figure_menu() (spacr.qt.widgets.figure_queue.FigureQueue method) show_for() (spacr.qt.widgets.availability_panel.AvailabilityPanel method) (spacr.qt.widgets.hover_tooltip.HoverTooltip method) show_frame() (spacr.qt.widgets.timelapse_movie.FovMovie method) show_group() (spacr.qt.screens.dose_response.DoseResponseScreen method) show_index() (spacr.qt.widgets.figure_queue.FigureQueue method) show_keys() (spacr.qt.widgets.fast_plots.ResultsTable method) show_live_canvas() (spacr.qt.widgets.figure_queue.FigureQueue method) show_message() (spacr.qt.widgets.segmentation_views.SegmentationViews method) show_mode() (spacr.qt.widgets.plaque_preview.PlaqueSettingsDialog method) show_module() (spacr.qt.widgets.module_hint_bar.ModuleHintBar method) show_module_hint() (spacr.qt.screens.app_screen.AppScreen method) (spacr.qt.widgets.home.HomePage method) show_next() (spacr.qt.widgets.figure_queue.FigureQueue method) show_next_coefficient() (spacr.qt.widgets.cell_montage_view.CellMontageView method) show_panel() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) show_picture() (spacr.qt.widgets.segmentation_views.SegmentationViews method) (spacr.qt.widgets.sweep_panel.SweepPanel method) show_point() (spacr.qt.widgets.umap_explorer.ImageUmapExplorer method) show_preferences_on() (spacr.qt.app.MainWindow method) show_prev() (spacr.qt.widgets.figure_queue.FigureQueue method) show_screensaver() (in module spacr.qt.screensaver) show_spacr_flowchart() (in module spacr.qt.widgets.workflow_diagram) show_spec() (spacr.qt.widgets.grouped_plot.GroupedPlot method) show_tab() (in module spacr.qt.preferences_navigation) (spacr.qt.widgets.picture_settings_dialog.PictureSettingsDialog method) show_the_proposal() (spacr.qt.widgets.settings_advisor_dialog.ProposalPage method) (spacr.qt.widgets.settings_advisor_dialog.SettingsAdvisorDialog method) show_the_questions() (spacr.qt.widgets.settings_advisor_dialog.SettingsAdvisorDialog method) show_trial() (spacr.qt.screens.hyperparam.HyperparamPanel method) show_walkthrough() (in module spacr.qt.walkthrough) showEvent() (spacr.qt.screens.app_screen.AppScreen method) (spacr.qt.screens.classify.LazyFlowViewSection method) (spacr.qt.screens.distributed_jobs.DistributedJobsScreen method) (spacr.qt.screens.run_history.RunHistoryScreen method) (spacr.qt.widgets.activity_spinner.ActivitySpinner method) (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.collapsible_splitter.CollapsibleSplitter method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) (spacr.qt.widgets.file_list.PairedFileTableWidget method) (spacr.qt.widgets.gene_panel.GenePanel method) (spacr.qt.widgets.home.NewsPanel method) (spacr.qt.widgets.hover_tooltip.HoverTooltip method) (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.setup_card.SetupCard method) (spacr.qt.widgets.setup_slides.SetupSlides method) (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) (spacr.qt.widgets.usage_bar.UsageBar method) (spacr.qt.widgets.workflow_diagram.WorkflowView method) showing_the_figure_grid() (spacr.qt.screens.app_screen.AppScreen method) showing_the_live_graph() (spacr.qt.screens.app_screen.AppScreen method) showing_the_results() (spacr.qt.screens.app_screen.AppScreen method) shown (spacr.qt.ai.providers.InstallMethod property) shrink_objects() (in module spacr.qt.mask_engine) shuffle_dataset() (spacr.io.NoClassDataset method) (spacr.io.spacrDataset method) shut (spacr.qt.widgets.collapsible_splitter.FoldSection property) (spacr.qt.widgets.foldable.Folder property) shutdown() (spacr.qt.job_runner.JobRunner method) (spacr.qt.screens.classify.LazyFlowViewSection method) (spacr.qt.screens.map_barcodes.BarcodeSearchPanel method) (spacr.qt.sound.SoundEngine method) (spacr.qt.widgets.ai_chat_panel.AIChatPanel method) (spacr.qt.widgets.annotation_strategy_panel.AnnotationStrategyPanel method) (spacr.qt.widgets.cell_montage_view.CellMontageView method) (spacr.qt.widgets.cli_setup_panel.CliSetupPanel method) (spacr.qt.widgets.console_panel.ConsolePanel method) (spacr.qt.widgets.database_set.DatabaseSetWidget method) (spacr.qt.widgets.host_pathogen_preview.HostPathogenPreviewPanel method) (spacr.qt.widgets.import_workbench.ImportWorkbench method) (spacr.qt.widgets.live_preview.LivePreviewPanel method) (spacr.qt.widgets.measure_preview.MeasurePreviewPanel method) (spacr.qt.widgets.motility_preview.MotilityPreviewPanel method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) (spacr.qt.widgets.primary_mask_selector.PrimaryMaskSelector method) (spacr.qt.widgets.row_exclusion.RowExclusionEditor method) (spacr.qt.widgets.timelapse_preview.TimelapsePreviewPanel method) shutdown_sound() (in module spacr.qt.sound) sibling_sources() (in module spacr.qt.widgets.preview_controls) side_for_header() (in module spacr.qt.widgets.file_list) Sidebar (class in spacr.qt.app) sign_agreement() (spacr.qt.widgets.pca_model.PCAResult method) sign_in() (spacr.qt.widgets.cli_setup_panel.CliSetupPanel method) sign_in_failed() (spacr.qt.widgets.cli_setup_panel.CliSetupPanel method) signal_max() (in module spacr.intensity_rescale) significant() (spacr.hits.HitList method) SignInDialog (class in spacr.qt.ai.pty_sign_in) silence() (in module spacr.qt.resonance) simes_p_value() (in module spacr.measurement_scan) similarity_from_correspondences() (in module spacr.ops_phenotype) similarity_graph() (in module spacr.sudoku) simulate_imaging_plate() (in module spacr.power_simulate) simulate_library() (in module spacr.power_simulate) simulate_screen() (in module spacr.power_simulate) simulate_sequencing_plate() (in module spacr.power_simulate) simulate_spot_plate() (in module spacr.power_simulate) simulator_kwargs() (in module spacr.qt.widgets.power_design) single_correction_family() (in module spacr.qt.screens.regression) single_read_chunked_processing() (in module spacr.sequencing) single_threaded_openmp (class in spacr.openmp_guard) sink() (in module spacr.figure_sink) site() (spacr.ops_layout.WellLayout method) site_count (spacr.ops_layout.WellLayout property) size (spacr.barcode_search.BarcodeTable property) (spacr.layers.PointsLayer property) (spacr.qt.make_masks_datasets.MaskDataset property) (spacr.qt.widgets.dna_rain.DnaRainEngine property) size() (spacr.hyperparam.SearchSpace method) (spacr.parameter_sweep.SweepSpace method) size_close_mark() (in module spacr.qt.theme) size_scale() (spacr.qt.widgets.ambient.AmbientWidget method) sizeHint() (spacr.qt.settings_search.SettingsSearchBar method) (spacr.qt.widgets.column_aligned_row.ColumnAlignedRow method) (spacr.qt.widgets.eliding.ElidingLabel method) (spacr.qt.widgets.eliding.ElidingPushButton method) (spacr.qt.widgets.flow.FlowHost method) (spacr.qt.widgets.flow.FlowLayout method) (spacr.qt.widgets.home.AppTile method) (spacr.qt.widgets.provider_marks.ProviderMark method) (spacr.qt.widgets.tile.HTile method) (spacr.qt.widgets.toggle.Toggle method) skipped (spacr.batch.QueueResult property) skipped_on_purpose() (in module spacr.qt.setup_screen) skipped_units (spacr.runctx.ErrorPolicy property) SkipRecord (class in spacr.runctx) skips (spacr.runctx.ErrorPolicy property) (spacr.runctx.RunContext property) sklearn_cv_fit_fn() (in module spacr.hyperparam) slice_index() (spacr.qt.ortho_view.OrthoView method) slide() (spacr.qt.widgets.setup_slides.SetupSlides method) slider() (spacr.layers.OrthoViews method) slope (spacr.profiler.Profile property) slot_setting() (in module spacr.organelle_types) slugify() (in module spacr.gate_library) (in module spacr.qt.widgets.model_share) small_multiple_layout() (in module spacr.figures.plates) smallest_class (spacr.qt.widgets.feature_rank.FeatureScore property) smooth() (in module spacr.nonparametric_fits) smooth_and_filter_tracks() (in module spacr.qt.widgets.motility_preview) smooth_hull_lines() (in module spacr.utils) SmoothGrad (class in spacr.deep_spacr) smoothgrad() (in module spacr.attribution) smoothgrad_variant() (spacr.attribution.MethodSpec method) snap_to_nearest_axis() (spacr.qt.widgets.gate_editor.GateCanvas method) snapshot() (in module spacr.qt.timing) (spacr.flowview.collector.Collector method) (spacr.qt.widgets.dna_rain.DnaRainEngine method) (spacr.qt.widgets.fast_plots.FastPlot method) solid_annotation_blocks() (in module spacr.qt.imagery) solve_dim() (in module spacr.qt.imagery) solve_image_file() (in module spacr.qt.imagery) solve_placements() (in module spacr.ops_solve) solve_positions() (in module spacr.align) solve_scrim_alpha() (in module spacr.qt.theme) somebody_is_there() (in module spacr.qt.ask_for_the_path) sort() (spacr.qt.screens.db_browser.PreviewModel method) sort_key_of() (in module spacr.qt.widgets.sortable_table) SortableProxyModel (class in spacr.qt.widgets.sortable_table) SortableTableItem (class in spacr.qt.widgets.sortable_table) SortableTreeItem (class in spacr.qt.widgets.sortable_table) sorts_as_missing() (in module spacr.qt.widgets.sortable_table) sound (spacr.qt.night_themes.NightTheme property) sound_bed_rests() (in module spacr.qt.preferences) sound_cache_root() (in module spacr.qt.sound_synth) sound_engine() (in module spacr.qt.sound) sound_for() (in module spacr.qt.night_themes) sound_is_offered() (in module spacr.qt.preferences) sound_names() (in module spacr.qt.sound_synth) SoundEngine (class in spacr.qt.sound) SoundPage (class in spacr.qt.sound_preferences) SoundSettings (class in spacr.qt.sound) SoundTheme (class in spacr.qt.sound_synth) source (spacr.foreign.ResolvedColumn property) source() (spacr.macro.Macro method) (spacr.qt.screens.qc_dashboard.QCDashboardScreen method) (spacr.qt.widgets.model_share_dialog.ContributeMasksDialog method) source_app() (spacr.qt.widgets.section.Section method) source_content_extent() (in module spacr.qt.widgets.animation_zoom) source_folder() (spacr.qt.screens.model_compare.ModelCompareScreen method) source_key() (in module spacr.chaining) source_labels() (in module spacr.multi_database) source_mark() (spacr.qt.widgets.section.Section method) source_of() (in module spacr.model_zoo) (in module spacr.qt.ai.keys) source_of_key() (spacr.qt.ai.providers.ChatProvider method) source_path() (in module spacr.qt.screens.image_umap) (spacr.qt.screens.convert.ConvertScreen method) source_paths() (in module spacr.qt.widgets.row_exclusion) source_root_for_database() (in module spacr.portable_paths) SourceDropHandler (class in spacr.qt.dnd_handlers) SourceImage (class in spacr.convert) sources (spacr.plate_measurements.PlateMerge property) sources() (spacr.qt.screens.methods_export.MethodsExportScreen method) (spacr.qt.widgets.database_set.DatabaseSetWidget method) SourceStrip (class in spacr.qt.widgets.model_zoo_picker) SourceSummary (class in spacr.multi_database) space() (spacr.ome_zarr.Axis class method) space_axes (spacr.ome_zarr.OmeZarrImage property) SpaceEngine (class in spacr.qt.widgets.fractal_space) spaceout() (spacr.qt.widgets.setup_card.SetupCard method) spaceout_drift() (in module spacr.qt.theme) spaceout_drift_seconds() (in module spacr.qt.theme) spaceout_drift_step() (in module spacr.qt.theme) spaceout_enabled() (in module spacr.qt.theme) spaceout_hue() (spacr.qt.widgets.setup_card.SetupCard method) spaceout_palette() (in module spacr.qt.theme) Spacing (class in spacr.layers) spacing (spacr.layers.Layer property) (spacr.ome_zarr.OmeZarrImage property) spacing_at() (spacr.ome_zarr.OmeZarrImage method) spacing_from_axes() (in module spacr.ome_zarr) spacr module spacr._starplast module spacr.accelerator module spacr.active_learning module spacr.agreement module spacr.align module spacr.anndata_export module spacr.annotation module spacr.annotation_dataset module spacr.annotation_power module spacr.annotation_umap_qc module spacr.annotation_validation module spacr.api module spacr.artifacts module spacr.attribution module spacr.attribution_columns module spacr.barcode_search module spacr.baseline module spacr.batch module spacr.batch_correction module spacr.benchmark module spacr.bystanders module spacr.cancellation module spacr.cell_montage module spacr.chaining module spacr.checkpoint module spacr.classification_pixels module spacr.classifier_evaluation module spacr.classifier_quality module spacr.classify module spacr.classify_classes module spacr.cli module spacr.cli_database module spacr.cli_download module spacr.cli_leakage module spacr.cli_make_masks module spacr.cli_plugins module spacr.cli_remote module spacr.cli_repro module spacr.cli_workspace module spacr.column_groups module spacr.columns module spacr.confusion module spacr.control_names module spacr.convert module spacr.core module spacr.counting module spacr.crashreport module spacr.crop_loader module spacr.crop_source module spacr.crops module spacr.curation module spacr.curation_queue module spacr.custom_features module spacr.data_manager module spacr.database_concurrency module spacr.database_schema module spacr.deep_spacr module spacr.dependent_join module spacr.diameter module spacr.doctor module spacr.embeddings module spacr.errors module spacr.example_archives module spacr.example_data module spacr.example_data_manifest module spacr.external_masks module spacr.feature_dict module spacr.figure_font module spacr.figure_sink module spacr.figure_style module spacr.figures module spacr.figures.bundle module spacr.figures.distributions module spacr.figures.fast_render module spacr.figures.headless module spacr.figures.panels module spacr.figures.plates module spacr.figures.scene module spacr.figures.sheet module spacr.figures.spread module spacr.figures.stats module spacr.figures.style module spacr.figures.summary module spacr.filters module spacr.fit_resources module spacr.flowview module spacr.flowview.classify_blueprint module spacr.flowview.collector module spacr.flowview.events module spacr.flowview.export module spacr.flowview.feeder module spacr.flowview.items module spacr.flowview.layout module

spacr.flowview.model module spacr.flowview.panel module spacr.flowview.theme module spacr.flowview.thumbs module spacr.flowview.trace module spacr.foreign module spacr.fraction_calibration module spacr.frame_handoff module spacr.gate_library module spacr.gene_facts module spacr.gene_measurement_compare module spacr.gene_measurement_sweep module spacr.gene_tile module spacr.gpu_reduce module spacr.graph_types module spacr.group_lasso module spacr.guide_attribution module spacr.guide_concordance module spacr.guide_permutation module spacr.hit_attribution module spacr.hit_investigation module spacr.hits module spacr.host_pathogen module spacr.host_pathogen_example module spacr.host_pathogen_preview module spacr.hyperparam module spacr.illumination module spacr.image_colors module spacr.image_import module spacr.image_quality module spacr.image_stitch module spacr.import_examples module spacr.import_plan module spacr.infection module spacr.inference_augmentation module spacr.install_cleanup module spacr.install_profile module spacr.intensity_rescale module spacr.io module spacr.layers module spacr.lineage module spacr.localisation module spacr.logger module spacr.logging_util module spacr.macro module spacr.mask_io module spacr.measure module spacr.measure_hooks module spacr.measurement_scan module spacr.measurement_schema module spacr.merge_tables module spacr.metadata_resolution module spacr.methods_export module spacr.mixed_gpu module spacr.ml module spacr.model_check module spacr.model_compare module spacr.model_zoo module spacr.multi_database module spacr.multiple_testing module spacr.napari_bridge module spacr.nonparametric_fits module spacr.normalization module spacr.notebook_export module spacr.object module spacr.object_classifier module spacr.object_distances module spacr.object_roles module spacr.object_settings_table module spacr.ome_zarr module spacr.omero module spacr.openmp_guard module spacr.ops_accel module spacr.ops_compose module spacr.ops_cycles module spacr.ops_engine module spacr.ops_layout module spacr.ops_merge module spacr.ops_objects module spacr.ops_phenotype module spacr.ops_register module spacr.ops_sample module spacr.ops_sbs module spacr.ops_settings module spacr.ops_solve module spacr.ops_stitch module spacr.ops_store module spacr.organelle_types module spacr.outlier_filter module spacr.parameter_sweep module spacr.permutation_qc module spacr.picture_settings module spacr.pipeline_graph module spacr.pipeline_v2 module spacr.plaque module spacr.plaque_growth module spacr.plaque_papers module spacr.plate_measurements module spacr.plate_qc module spacr.plot module spacr.plugins module spacr.png_list module spacr.point_patterns module spacr.point_spread module spacr.portable_paths module spacr.ports module spacr.power_model module spacr.power_simulate module spacr.predictions module spacr.profiler module spacr.projects module spacr.psf_measurement module spacr.psf_pipeline module spacr.qc_quarantine module spacr.qt module spacr.qt.ai module spacr.qt.ai.cli_install module spacr.qt.ai.github_auth module spacr.qt.ai.issue_preview module spacr.qt.ai.issue_report module spacr.qt.ai.keys module spacr.qt.ai.manuscript module spacr.qt.ai.prompts module spacr.qt.ai.providers module spacr.qt.ai.pty_sign_in module spacr.qt.ai.settings module spacr.qt.ai.worker module spacr.qt.annotate_engine module spacr.qt.app module spacr.qt.app_catalog module spacr.qt.ask_for_the_path module spacr.qt.assay_examples module spacr.qt.bridge module spacr.qt.button_roles module spacr.qt.chaining module spacr.qt.command_palette module spacr.qt.comparison_grid module spacr.qt.counting_tool module spacr.qt.cpu_modes module spacr.qt.crash_recovery module spacr.qt.crop_thumbs module spacr.qt.curation_tool module spacr.qt.detect_chain module spacr.qt.dialogs module spacr.qt.dnd module spacr.qt.dnd_handlers module spacr.qt.first_run module spacr.qt.folder_metadata module spacr.qt.fractal_defaults module spacr.qt.gc_policy module spacr.qt.gil_priority module spacr.qt.gui_scale module spacr.qt.help_api_index module spacr.qt.help_index module spacr.qt.help_search module spacr.qt.hf_download module spacr.qt.hidpi module spacr.qt.i18n module spacr.qt.i18n_module_summaries module spacr.qt.i18n_module_summaries_asia module spacr.qt.i18n_module_summaries_other module spacr.qt.i18n_module_summaries_west module spacr.qt.iconset module spacr.qt.imagery module spacr.qt.import_demo module spacr.qt.ingest_preview module spacr.qt.install_consent module spacr.qt.job_runner module spacr.qt.laptop_mode module spacr.qt.layer_viewer module spacr.qt.linked_selection module spacr.qt.live_zoom module spacr.qt.logging_util module spacr.qt.make_masks_datasets module spacr.qt.make_masks_demo module spacr.qt.mask_engine module spacr.qt.maturity module spacr.qt.memory_budget module spacr.qt.menus module spacr.qt.model_install module spacr.qt.module_hints module spacr.qt.multi_format module spacr.qt.night_themes module spacr.qt.notify module spacr.qt.ops_stitch_demo module spacr.qt.organelle_modes module spacr.qt.organisms module spacr.qt.ortho_view module spacr.qt.path_probe module spacr.qt.plate_queue module spacr.qt.preferences module spacr.qt.preferences_navigation module spacr.qt.prefs module spacr.qt.prerun module spacr.qt.preview_registry module spacr.qt.recipes module spacr.qt.regex_detect module spacr.qt.regex_editor module spacr.qt.resonance module spacr.qt.resource_cleanup module spacr.qt.roi_tool module spacr.qt.safespacr module spacr.qt.screens module spacr.qt.screens.activation module spacr.qt.screens.agreement module spacr.qt.screens.align module spacr.qt.screens.annotate module spacr.qt.screens.app_screen module spacr.qt.screens.batch module spacr.qt.screens.classifier_evaluation module spacr.qt.screens.classify module spacr.qt.screens.control_chart module spacr.qt.screens.convert module spacr.qt.screens.curate module spacr.qt.screens.data_manager module spacr.qt.screens.db_browser module spacr.qt.screens.distributed_jobs module spacr.qt.screens.dose_response module spacr.qt.screens.embeddings module spacr.qt.screens.experiment_design module spacr.qt.screens.feature_explorer module spacr.qt.screens.foreign module spacr.qt.screens.gate_editor module spacr.qt.screens.graph_builder module spacr.qt.screens.hit_list module spacr.qt.screens.hyperparam module spacr.qt.screens.image_import module spacr.qt.screens.image_scatter module spacr.qt.screens.image_umap module spacr.qt.screens.investigate_hit module spacr.qt.screens.lineage module spacr.qt.screens.make_masks module spacr.qt.screens.map_barcodes module spacr.qt.screens.mask module spacr.qt.screens.measure module spacr.qt.screens.measure_inputs module spacr.qt.screens.methods_export module spacr.qt.screens.model_compare module spacr.qt.screens.model_explanation module spacr.qt.screens.model_zoo module spacr.qt.screens.organism_screen module spacr.qt.screens.outliers module spacr.qt.screens.parameter_sweep module spacr.qt.screens.pca module spacr.qt.screens.pipeline_graph module spacr.qt.screens.plate_view module spacr.qt.screens.power module spacr.qt.screens.profiler module spacr.qt.screens.project_browser module spacr.qt.screens.qc_dashboard module spacr.qt.screens.queue module spacr.qt.screens.regression module spacr.qt.screens.report module spacr.qt.screens.run_compare module spacr.qt.screens.run_history module spacr.qt.screens.setting_api_targets module spacr.qt.screens.settings_flow_index module spacr.qt.screens.settings_model module spacr.qt.screens.tabulate module spacr.qt.screens.train_cellpose module spacr.qt.screens.train_compare module spacr.qt.screens.trellis module spacr.qt.screens.volcano module spacr.qt.screensaver module spacr.qt.secondary_masks module spacr.qt.settings_diff module spacr.qt.settings_pack module spacr.qt.settings_search module spacr.qt.setup_screen module spacr.qt.shortcuts module spacr.qt.shutdown module spacr.qt.sound module spacr.qt.sound_preferences module spacr.qt.sound_synth module spacr.qt.space module spacr.qt.spaceout module spacr.qt.stall_watch module spacr.qt.starplast module spacr.qt.startup_benchmark module spacr.qt.synthetic module spacr.qt.terms module spacr.qt.terms_i18n module spacr.qt.theme module spacr.qt.thread_guard module spacr.qt.timing module spacr.qt.tooltip_policy module spacr.qt.tutorials module spacr.qt.verbose_logger module spacr.qt.walkthrough module spacr.qt.wand_rescue module spacr.qt.widget_cleanup module spacr.qt.widgets module spacr.qt.widgets.activity_spinner module spacr.qt.widgets.aggregation_rules module spacr.qt.widgets.ai_chat_panel module spacr.qt.widgets.ai_toggle_label module spacr.qt.widgets.ambient module spacr.qt.widgets.animation_zoom module spacr.qt.widgets.annotation_strategy_panel module spacr.qt.widgets.annotation_umap_tab module spacr.qt.widgets.api_help_label module spacr.qt.widgets.availability_panel module spacr.qt.widgets.barcode_regex module spacr.qt.widgets.card module spacr.qt.widgets.cell_montage_view module spacr.qt.widgets.channel_mapping module spacr.qt.widgets.channel_picker module spacr.qt.widgets.class_editor module spacr.qt.widgets.cli_setup_panel module spacr.qt.widgets.collapsible_section module spacr.qt.widgets.collapsible_splitter module spacr.qt.widgets.colour_picker module spacr.qt.widgets.column_aligned_row module spacr.qt.widgets.column_picker module spacr.qt.widgets.console_panel module spacr.qt.widgets.control_chart module spacr.qt.widgets.cursor_policy module spacr.qt.widgets.cursor_zoom module spacr.qt.widgets.data_filter_panel module spacr.qt.widgets.database_set module spacr.qt.widgets.divider module spacr.qt.widgets.dna_rain module spacr.qt.widgets.dna_rain_settings module spacr.qt.widgets.dock module spacr.qt.widgets.dose_response module spacr.qt.widgets.dot_link module spacr.qt.widgets.drawer module spacr.qt.widgets.eliding module spacr.qt.widgets.empty_state module spacr.qt.widgets.external_mask_inputs module spacr.qt.widgets.fast_plots module spacr.qt.widgets.feature_dictionary module spacr.qt.widgets.feature_explorer module spacr.qt.widgets.feature_rank module spacr.qt.widgets.field_fade module spacr.qt.widgets.figure_grid module spacr.qt.widgets.figure_grid_view module spacr.qt.widgets.figure_queue module spacr.qt.widgets.figure_settings module spacr.qt.widgets.file_list module spacr.qt.widgets.flash module spacr.qt.widgets.flow module spacr.qt.widgets.fold_strip module spacr.qt.widgets.foldable module spacr.qt.widgets.folding_summary module spacr.qt.widgets.formula module spacr.qt.widgets.formula_editor module spacr.qt.widgets.fractal_cascade module spacr.qt.widgets.fractal_mandelbrot module spacr.qt.widgets.fractal_orbit_gpu module spacr.qt.widgets.fractal_regions module spacr.qt.widgets.fractal_space module spacr.qt.widgets.fractal_travel module spacr.qt.widgets.gate_canvas module spacr.qt.widgets.gate_console module spacr.qt.widgets.gate_editor module spacr.qt.widgets.gate_search_panel module spacr.qt.widgets.gate_settings module spacr.qt.widgets.gate_spec module spacr.qt.widgets.gene_panel module spacr.qt.widgets.gene_tile module spacr.qt.widgets.glass module spacr.qt.widgets.graph_builder module spacr.qt.widgets.graph_spec module spacr.qt.widgets.grouped_plot module spacr.qt.widgets.height_grip module spacr.qt.widgets.hint_bar module spacr.qt.widgets.home module spacr.qt.widgets.host_pathogen_preview module spacr.qt.widgets.hover_tooltip module spacr.qt.widgets.image_ruler module spacr.qt.widgets.import_workbench module spacr.qt.widgets.info_link module spacr.qt.widgets.live_preview module spacr.qt.widgets.loading_screen module spacr.qt.widgets.make_masks_help module spacr.qt.widgets.mask_comparison module spacr.qt.widgets.measure_input_table module spacr.qt.widgets.measure_preview module spacr.qt.widgets.measurement_compare_dialog module spacr.qt.widgets.measurement_scan_panel module spacr.qt.widgets.measurements_example module spacr.qt.widgets.metadata_mapper module spacr.qt.widgets.metadata_table module spacr.qt.widgets.model_share module spacr.qt.widgets.model_share_dialog module spacr.qt.widgets.model_zoo_picker module spacr.qt.widgets.module_hint_bar module spacr.qt.widgets.motility_preview module spacr.qt.widgets.object_grid_binding module spacr.qt.widgets.object_settings_grid module spacr.qt.widgets.organism_diagram module spacr.qt.widgets.outlier_model module spacr.qt.widgets.pca_model module spacr.qt.widgets.pca_view module spacr.qt.widgets.percentile_pair module spacr.qt.widgets.picture_export module spacr.qt.widgets.picture_settings_dialog module spacr.qt.widgets.pipeline_details module spacr.qt.widgets.pivot_builder module spacr.qt.widgets.pivot_spec module spacr.qt.widgets.plaque_preview module spacr.qt.widgets.plate_layout module spacr.qt.widgets.plate_map_picker module spacr.qt.widgets.popup_state module spacr.qt.widgets.power_design module spacr.qt.widgets.preview_contract module spacr.qt.widgets.preview_controls module spacr.qt.widgets.preview_refresh module spacr.qt.widgets.preview_scale module spacr.qt.widgets.primary_mask_selector module spacr.qt.widgets.provider_marks module spacr.qt.widgets.psf_controls module spacr.qt.widgets.qc_field_browser module spacr.qt.widgets.qc_summary module spacr.qt.widgets.read_view module spacr.qt.widgets.refit_dialog module spacr.qt.widgets.regression_results module spacr.qt.widgets.restoration_controls module spacr.qt.widgets.row_exclusion module spacr.qt.widgets.sample_project module spacr.qt.widgets.save_figure_dialog module spacr.qt.widgets.screen_data_picker module spacr.qt.widgets.section module spacr.qt.widgets.segmentation_views module spacr.qt.widgets.settings_advisor_dialog module spacr.qt.widgets.setup_card module spacr.qt.widgets.setup_dialog module spacr.qt.widgets.setup_slides module spacr.qt.widgets.sortable_table module spacr.qt.widgets.sra_picker module spacr.qt.widgets.sweep_panel module spacr.qt.widgets.sweep_runs module spacr.qt.widgets.table_chip module spacr.qt.widgets.test_data_chooser module spacr.qt.widgets.tile module spacr.qt.widgets.tile_chrome module spacr.qt.widgets.timelapse_movie module spacr.qt.widgets.timelapse_preview module spacr.qt.widgets.toggle module spacr.qt.widgets.training_monitor module spacr.qt.widgets.trellis_spec module spacr.qt.widgets.trellis_view module spacr.qt.widgets.umap_explorer module spacr.qt.widgets.umap_figure_settings module spacr.qt.widgets.umap_search_viewer module spacr.qt.widgets.usage_bar module spacr.qt.widgets.volcano_explorer module spacr.qt.widgets.volume_view module spacr.qt.widgets.workflow_diagram module spacr.qt.widgets.zoom_view module spacr.read_background module spacr.refit module spacr.regex_infer module spacr.regression_annotation module spacr.regression_backends module spacr.regression_diagnostics module spacr.regression_failure module spacr.regression_families module spacr.regression_layout module spacr.regression_panels module spacr.regression_qc module spacr.regression_search module spacr.regression_spec module spacr.regression_summary module spacr.remote_execution module spacr.report module spacr.resource_log module spacr.response_distribution module spacr.restart_state module spacr.resume module spacr.roi module spacr.row_exclusions module spacr.rra module spacr.run_compare module spacr.run_journal module spacr.run_recommendations module spacr.runctx module spacr.schema module spacr.scorecard module spacr.screen_data module spacr.seg_qc module spacr.selection module spacr.sequencing module spacr.sequencing_qc module spacr.setting_animations module spacr.settings module spacr.settings_advisor module spacr.settings_spec module spacr.sim module spacr.sp_stats module spacr.spacr_cellpose module spacr.sra module spacr.stream_dataset module spacr.style_base module spacr.submodules module spacr.sudoku module spacr.suggest module spacr.surrogate module spacr.sweep_child module spacr.tabular module spacr.thresholds module spacr.tiff_io module spacr.timeflows_baseline module spacr.timeflows_model module spacr.timeflows_qc module spacr.timeflows_validation module spacr.timelapse module spacr.torch_artifacts module spacr.toxo module spacr.train_compare module spacr.training_basis module spacr.trial_metrics module spacr.umap_annotations module spacr.umap_search module spacr.uniprot module spacr.updater module spacr.utils module spacr.validate module spacr.version module spacr.volcano_style module spacr.well_scope module spacr.well_spec module spacr.workspace module spacr.zstack module spacr_mode_for_level() (in module spacr.qt.preferences) spacr_rng() (in module spacr.runctx) spacr_unit_to_ngff() (in module spacr.ome_zarr) spacr_units() (spacr.ome_zarr.Axis method) spacr_version() (in module spacr.qt.recipes) spacrDataLoader (class in spacr.io) spacrDataset (class in spacr.io) SpacrError SpacrFlowchartDialog (class in spacr.qt.widgets.workflow_diagram) spacrGraph (class in spacr.plot) SpacrPlugin (class in spacr.plugins) span (spacr.profiler.Profile property) (spacr.qt.widgets.control_chart.Violation property) (spacr.qt.widgets.dose_response.DoseResponseResult property) span() (in module spacr.qt.timing) (spacr.curation.TrackCuration method) (spacr.ops_layout.WellLayout method) spatial_column_names() (in module spacr.measure) SpatialAttention (class in spacr.utils) spawn_organelle_slots() (spacr.qt.screens.settings_model.SettingsWidgets method) spec (spacr.qt.screens.feature_explorer.FeatureExplorerScreen property) (spacr.qt.screens.trellis.TrellisScreen property) (spacr.qt.widgets.feature_explorer.FeatureExplorerPanel property) (spacr.qt.widgets.graph_builder.GraphBuilderPanel property) (spacr.qt.widgets.graph_builder.GraphCanvas property) (spacr.qt.widgets.trellis_view.TrellisPanelWidget property) spec() (spacr.qt.screens.control_chart.ControlChartScreen method) (spacr.qt.screens.dose_response.DoseResponseScreen method) (spacr.qt.screens.embeddings.EmbeddingsScreen method) (spacr.qt.screens.outliers.OutliersScreen method) (spacr.qt.screens.power.PowerScreen method) (spacr.qt.widgets.pca_view.PCAPanel method) (spacr.qt.widgets.pivot_builder.PivotPanel method) spec_for() (spacr.crops.MergedCropSource method) SpecError specificity (spacr.classifier_quality.Confusion property) speed() (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.dna_rain.DnaRainSettingsBar method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) speed_at() (spacr.qt.widgets.fractal_travel.RuntimeControls method) speed_group_values() (in module spacr.qt.preferences) spilled_count() (spacr.qt.widgets.figure_queue.FigureQueue method) spin_on_every_button() (in module spacr.qt.widgets.glass) spinning (spacr.qt.widgets.setup_card.SetupCard property) splash_dim_alpha() (in module spacr.qt.theme) spline_design() (in module spacr.nonparametric_fits) split() (spacr.curation.TrackCuration method) split_api_link() (in module spacr.qt.widgets.hover_tooltip) split_by_confidence() (in module spacr.confusion) split_candidates() (in module spacr.object_classifier) split_columns_for() (in module spacr.classifier_evaluation) split_command() (in module spacr.qt.ai.cli_install) split_group_values() (in module spacr.classifier_evaluation) split_legend() (in module spacr.plaque_papers) split_my_dataset() (in module spacr.utils) split_object_at() (in module spacr.qt.mask_engine) split_object_id() (in module spacr.schema) split_role_setting() (in module spacr.object_roles) split_rows() (in module spacr.qt.widgets.folding_summary) split_sections() (in module spacr.qt.ai.manuscript) (in module spacr.qt.widgets.folding_summary) split_selected() (spacr.qt.curation_tool.TrackCurationPanel method) split_sizes() (spacr.qt.widgets.console_panel.ConsolePanel method) split_wells() (in module spacr.submodules) SplitReport (class in spacr.classifier_evaluation) splits() (spacr.train_compare.Comparison method) splits_and_merges() (in module spacr.scorecard) splitter_of() (in module spacr.qt.widgets.collapsible_splitter) SpotDetectorCombo (class in spacr.qt.model_install) spread_label() (in module spacr.figures.spread) spread_of() (in module spacr.figures.spread) sql_text() (spacr.qt.screens.db_browser.DbBrowserScreen method) SraPicker (class in spacr.qt.widgets.sra_picker) srgb_encode() (in module spacr.qt.imagery) ssmd_replicated() (in module spacr.sp_stats) ssmd_unreplicated() (in module spacr.sp_stats) stability_selection() (in module spacr.group_lasso) stack (spacr.layers.Layer property) (spacr.qt.comparison_grid.ComparisonPanel property) (spacr.qt.layer_viewer.LayerCanvas property) (spacr.qt.layer_viewer.LayerViewer property) (spacr.qt.ortho_view.OrthoView property) (spacr.qt.roi_tool.RoiPanel property) stack_from_paths() (in module spacr.qt.layer_viewer) StackFile (class in spacr.pipeline_v2) stage (spacr.qt.widgets.home.AppTile property) stage() (in module spacr.flowview.trace) (in module spacr.frame_handoff) stage_hover() (in module spacr.qt.theme) stage_label (spacr.projects.ProjectSummary property) StageCompleted (class in spacr.flowview.events) StageFailed (class in spacr.flowview.events) StageLegend (class in spacr.qt.widgets.home) StageMetric (class in spacr.flowview.events) StageProgress (class in spacr.flowview.events) StageStarted (class in spacr.flowview.events) StageThumbnail (class in spacr.flowview.events) stale (spacr.chaining.ChainedInput property) (spacr.pipeline_graph.Node property) (spacr.qt.widgets.qc_summary.Dashboard property) stale_inputs() (in module spacr.chaining) stale_nodes() (spacr.pipeline_graph.PipelineGraph method) stale_notes() (spacr.qt.chaining.ChainingBar method) stale_outputs() (in module spacr.chaining) stale_summary() (in module spacr.pipeline_graph) StaleArtifact (class in spacr.projects) Staleness (class in spacr.artifacts) staleness_known (spacr.projects.ProjectSummary property) staleness_note() (spacr.projects.ProjectSummary method) staleness_notes() (in module spacr.chaining) StaleNote (class in spacr.chaining) stalls_between() (in module spacr.qt.timing) stamp() (spacr.errors.RunLedger method) stamp_crop_folder() (in module spacr.crops) stamp_crop_format_in_db() (in module spacr.crops) standardisation_available (spacr.regression_qc.RegressionQCContext property) star_colors() (in module spacr.qt.space) starfield() (in module spacr.qt.space) StarplastInstallDialog (class in spacr.qt.starplast) StarplastUpdateCheckDialog (class in spacr.qt.starplast) stars() (in module spacr.figures.stats) start() (spacr.flowview.feeder.MultiprocessingFeeder method) (spacr.qt.annotate_engine.SaveWorker method) (spacr.qt.model_install.CheckpointDownload method) (spacr.qt.model_install.PackageInstall method) (spacr.qt.shutdown.GracefulQuitWatcher method) (spacr.qt.starplast.StarplastInstallDialog method) (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) (spacr.qt.widgets.model_zoo_picker.BackendInstallDialog method) (spacr.qt.widgets.sweep_panel.SweepPanel method) (spacr.resource_log.ResourceSampler method) start_blinding() (in module spacr.run_journal) start_counting() (spacr.qt.counting_tool.CountingPanel method) start_drawing() (spacr.qt.roi_tool.RoiPanel method) start_example() (in module spacr.qt.widgets.sample_project) start_for() (in module spacr.graph_types) start_hide() (spacr.qt.widgets.availability_panel.AvailabilityPanel method) (spacr.qt.widgets.hover_tooltip.HoverTooltip method) start_load() (spacr.qt.widgets.regression_results.RegressionResultsPanel method) start_merge() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) start_painting() (spacr.qt.curation_tool.BrushPanel method) start_regressions() (spacr.qt.widgets.measurement_scan_panel.ColumnRegressionPanel method) start_runner() (spacr.qt.screens.queue.QueueScreen method) start_search() (spacr.qt.screens.map_barcodes.BarcodeSearchPanel method) start_update_helper() (in module spacr.install_cleanup) starting_mark() (spacr.qt.widgets.fast_plots.GroupedPlot class method) starvation_cutoff() (in module spacr.sequencing_qc) starved_wells() (in module spacr.sequencing_qc) state() (spacr.qt.widgets.data_filter_panel.DataFilterPanel method) state_at_seconds() (in module spacr.qt.widgets.fractal_travel) state_directory() (in module spacr.remote_execution) state_label() (in module spacr.flowview.theme) state_path() (in module spacr.chaining) (in module spacr.restart_state) statement() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) statistic_at() (spacr.sequencing_qc.WellFractions method) statistic_column() (in module spacr.figures.panels) statistics_frame() (in module spacr.figures.bundle) statistics_rows() (in module spacr.figures.bundle) stats() (spacr.qt.widgets.gate_spec.GateSet method) Status (class in spacr.qt.plate_queue) status (spacr.checkpoint.CheckpointStore property) (spacr.errors.RunLedger property) (spacr.qt.widgets.dose_response.DoseResponseResult property) (spacr.qt.widgets.dose_response.GroupFit property) (spacr.qt.widgets.measurement_scan_panel.AttachedDatabase property) status() (spacr.qt.widgets.annotation_umap_tab.PurityScatter method) (spacr.qt.widgets.formula_editor.FormulaPanel method) (spacr.qt.widgets.gate_editor.GateEditorPanel method) status_is_error() (spacr.qt.screens.power.PowerScreen method) status_path (spacr.curation_queue.QueueLayout property) status_path() (in module spacr.curation_queue) status_text() (spacr.qt.screens.agreement.AgreementScreen method) (spacr.qt.screens.align.AlignScreen method) (spacr.qt.screens.batch.BatchScreen method) (spacr.qt.screens.convert.ConvertScreen method) (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) (spacr.qt.screens.foreign.ForeignScreen method) (spacr.qt.screens.image_import.ImageImportScreen method) (spacr.qt.screens.model_compare.ModelCompareScreen method) (spacr.qt.screens.model_zoo.ModelZooScreen method) (spacr.qt.screens.plate_view.PlateViewScreen method) (spacr.qt.screens.power.PowerScreen method) (spacr.qt.screens.qc_dashboard.QCDashboardScreen method) (spacr.qt.screens.report.ReportScreen method) (spacr.qt.screens.train_compare.TrainCompareScreen method) (spacr.qt.widgets.cell_montage_view.CellMontageView method) (spacr.qt.widgets.column_picker.ColumnPickerDialog method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsGrid method) (spacr.qt.widgets.regression_results.RegressionResultsPanel method) StatusFileError StatusRow (class in spacr.curation_queue) steering (spacr.qt.widgets.fractal_mandelbrot.SteeringCamera property) steering_from_one_number() (in module spacr.qt.widgets.fractal_mandelbrot) SteeringCamera (class in spacr.qt.widgets.fractal_mandelbrot) stem() (spacr.measure.FieldRow method) stems (spacr.external_masks.ExternalMaskPlan property) (spacr.foreign.ImportPlan property) step_folds() (spacr.qt.widgets.measurement_scan_panel.WorkflowSteps method) step_header() (in module spacr.qt.widgets.measurement_scan_panel) step_names() (in module spacr.qt.detect_chain) step_states() (spacr.qt.widgets.measurement_scan_panel.DatabaseMergePanel method) steps (spacr.qt.chaining.ChainingBar property) stitch_by_iou() (in module spacr.timeflows_baseline) stitch_planes() (in module spacr.zstack) stitch_settings_for() (in module spacr.qt.ops_stitch_demo) stitch_tiles() (in module spacr.image_stitch) (spacr.qt.screens.image_import.ImageImportScreen method) stitch_well() (in module spacr.ops_stitch) StitchedWell (class in spacr.ops_stitch) stop() (spacr.flowview.feeder.MultiprocessingFeeder method) (spacr.qt.ai.pty_sign_in.PtySession method) (spacr.qt.annotate_engine.SaveWorker method) (spacr.qt.screens.batch.BatchScreen method) (spacr.qt.shutdown.GracefulQuitWatcher method) (spacr.qt.widgets.ambient.AmbientWidget method) (spacr.qt.widgets.dna_rain.DnaRainWidget method) (spacr.resource_log.ResourceSampler method) stop_counting() (spacr.qt.counting_tool.CountingPanel method) stop_drawing() (spacr.qt.roi_tool.RoiPanel method) stop_loading() (spacr.qt.screens.embeddings.EmbeddingsScreen method) stop_painting() (spacr.qt.curation_tool.BrushPanel method) stop_preview() (spacr.qt.sound.SoundEngine method) stop_process() (in module spacr.qt.ai.cli_install) stop_runner() (spacr.qt.screens.queue.QueueScreen method) stop_search() (spacr.qt.screens.hyperparam.HyperparamPanel method) stop_sound_preview() (in module spacr.qt.sound) stop_the_runners() (spacr.qt.screens.measure_inputs.MeasureInputsScreen method) StoppingVerdict (class in spacr.active_learning) stops (spacr.layers.Colormap property) store() (spacr.flowview.thumbs.ThumbnailCache method) store_attribution() (in module spacr.hit_attribution) store_overlay_style() (in module spacr.qt.widgets.plaque_preview) StoreError storey_qvalue() (in module spacr.multiple_testing) strap_line() (in module spacr.qt.widgets.loading_screen) strap_phrases() (in module spacr.qt.widgets.loading_screen) Strategy (class in spacr.regression_annotation) strategy() (in module spacr.regression_annotation) strategy_key() (spacr.qt.widgets.annotation_strategy_panel.AnnotationStrategyPanel method) strategy_keys() (in module spacr.regression_annotation) StrategyNotImplemented stream() (in module spacr.stream_dataset) stream_chat() (spacr.qt.ai.providers.ChatProvider method) (spacr.qt.ai.providers.ClaudeCliProvider method) (spacr.qt.ai.providers.CodexCliProvider method) (spacr.qt.ai.providers.GeminiCliProvider method) stream_dataset() (in module spacr.stream_dataset) stream_masks_from_stack() (in module spacr.pipeline_v2) stream_originals_to_stack() (in module spacr.pipeline_v2) stream_planes() (in module spacr.crop_source) StreamWorker (class in spacr.qt.ai.worker) stretch_to_uint8() (in module spacr.qt.screens.make_masks) strict_errors() (in module spacr.errors) strip_is_open() (spacr.qt.widgets.timelapse_movie.FovMovie method) strip_prefix() (in module spacr.schema) strip_report_paths() (in module spacr.qt.ai.issue_report) strip_terminal_codes() (in module spacr.qt.ai.pty_sign_in) stroke_ring() (in module spacr.qt.widgets.tile_chrome) structure() (in module spacr.regex_infer) structure_mask() (in module spacr.qt.widgets.fractal_mandelbrot) style() (spacr.qt.widgets.volcano_explorer.VolcanoExplorer method) style_as_danger() (in module spacr.qt.shutdown) style_as_dict() (in module spacr.qt.widgets.fast_plots) style_choices() (in module spacr.figure_style) style_field_choices() (in module spacr.qt.widgets.fast_plots) style_field_group() (in module spacr.qt.widgets.fast_plots) style_field_kind() (in module spacr.qt.widgets.fast_plots) style_field_label() (in module spacr.qt.widgets.fast_plots) style_for_file() (in module spacr.qt.widgets.save_figure_dialog) style_kind() (in module spacr.qt.widgets.fast_plots) (in module spacr.style_base) style_menu_fields() (in module spacr.qt.widgets.fast_plots) styled_snapshot() (spacr.qt.widgets.fast_plots.FastPlot method) stylesheet() (in module spacr.qt.theme) stylesheet_roots() (spacr.qt.app.MainWindow method) SubmissionSettingsDropHandler (class in spacr.qt.dnd_handlers) submit() (spacr.qt.annotate_engine.SaveWorker method) (spacr.qt.job_runner.JobRunner method) (spacr.qt.screens.distributed_jobs.DistributedJobsScreen method) (spacr.remote_execution.RemoteJobManager method) submit_report() (in module spacr.qt.ai.issue_report) subprocess_runner() (in module spacr.batch) subscribe() (spacr.curation.MaskCuration method) (spacr.layers.CanvasLink method) (spacr.layers.LayerStack method) subscribe_readiness() (in module spacr.qt.timing) subtitle (spacr.gene_tile.GeneTile property) subtract_background() (in module spacr.read_background) succeeded (spacr.batch.QueueResult property) successful (spacr.hyperparam.SearchResult property) sudoku() (in module spacr.sudoku) sudoku_all() (in module spacr.sudoku) SudokuResult (class in spacr.sudoku) suggest() (in module spacr.columns) suggest_alternatives() (spacr.qt.dnd.DropHandler method) (spacr.qt.dnd_handlers.LayoutDropHandler method) (spacr.qt.dnd_handlers.MakeMasksDropHandler method) (spacr.qt.dnd_handlers.MaskDropHandler method) (spacr.qt.dnd_handlers.MeasureDropHandler method) (spacr.qt.dnd_handlers.PlaqueDropHandler method) suggest_alternatives_dialog() (in module spacr.qt.dnd) suggest_file_pairs() (in module spacr.qt.widgets.file_list) suggest_from_scores() (in module spacr.suggest) suggest_radii() (in module spacr.point_patterns) suggest_threshold() (in module spacr.read_background) suggest_training_changes() (in module spacr.utils) suggested_name() (in module spacr.qt.widgets.picture_export) Suggestions (class in spacr.suggest) summaries() (spacr.qt.screens.project_browser.ProjectBrowserScreen method) summarise() (in module spacr.column_groups) (in module spacr.figures.spread) (in module spacr.figures.summary) (in module spacr.macro) (in module spacr.qt.widgets.motility_preview) (in module spacr.resource_log) (in module spacr.timeflows_validation) summarise_rows() (in module spacr.omero) summarise_sweep() (in module spacr.parameter_sweep) summarise_trial() (in module spacr.trial_metrics) summarize() (in module spacr.curation_queue) (in module spacr.doctor) summarize_class_imbalance() (in module spacr.io) summarize_cv_folds() (in module spacr.io) summarize_cv_metrics() (in module spacr.deep_spacr) summarize_per_well() (in module spacr.timelapse) summarize_per_well_inf_non_inf() (in module spacr.timelapse) summarize_qc() (in module spacr.seg_qc) summarize_rows() (in module spacr.qt.ingest_preview) summarize_tables() (in module spacr.host_pathogen) summary (spacr.model_compare.ComparisonReport property) (spacr.model_zoo.BenchmarkResult property) (spacr.plate_qc.EdgeEffectReport property) summary() (spacr.active_learning.RoundResult method) (spacr.align.AlignResult method) (spacr.annotation_validation.Verdict method) (spacr.batch.QueueResult method) (spacr.cell_montage.MontagePlan method) (spacr.classifier_evaluation.SplitReport method) (spacr.classifier_quality.Confusion method) (spacr.convert.ConversionPlan method) (spacr.convert.ConversionResult method) (spacr.counting.CountingSession method) (spacr.crashreport.CrashReport method) (spacr.errors.RunLedger method) (spacr.external_masks.ExternalMaskPlan method) (spacr.external_masks.ExternalMaskResult method) (spacr.foreign.ImportResult method) (spacr.foreign.JoinReport method) (spacr.hit_attribution.HitAttributionResult method) (spacr.hits.HitList method) (spacr.image_import.ImportResult method) (spacr.image_import.InferredLayout method) (spacr.import_plan.ImportPlan method) (spacr.model_check.ModelReport method) (spacr.nonparametric_fits.Agreement method) (spacr.ops_stitch.StitchedWell method) (spacr.predictions.MergeReport method) (spacr.qt.multi_format.DatasetDescription method) (spacr.qt.resource_cleanup.DiskEntry method) (spacr.qt.resource_cleanup.DiskReport method) (spacr.qt.resource_cleanup.Reclaim method) (spacr.qt.settings_diff.SettingsDiff method) (spacr.qt.settings_pack.PackReport method) (spacr.qt.widgets.dose_response.InteractionSurface method) (spacr.qt.widgets.feature_explorer.FeatureExplorerPanel method) (spacr.qt.widgets.feature_rank.ExplorerResult method) (spacr.qt.widgets.motility_preview.MotilitySummary method) (spacr.qt.widgets.pivot_spec.PivotResult method) (spacr.qt.widgets.timelapse_preview.TrackStats method) (spacr.qt.widgets.trellis_spec.Trellis method) (spacr.regression_annotation.AnnotationResult method) (spacr.regression_annotation.FitReport method) (spacr.regression_annotation.LeakageReport method) (spacr.resource_log.ResourceSampler method) (spacr.run_compare.Comparability method) (spacr.runctx.ErrorPolicy method) (spacr.surrogate.SurrogateResult method) (spacr.updater.DryRun method) summary_for() (spacr.qt.screens.project_browser.ProjectBrowserScreen method) summary_for_console() (in module spacr.ml) summary_line() (spacr.mixed_gpu.TorchMixedResults method) (spacr.model_zoo.ModelEntry method) (spacr.train_compare.TrainingRun method) summary_row() (spacr.qt.widgets.dose_response.DoseResponseResult method) (spacr.qt.widgets.dose_response.GroupFit method) (spacr.qt.widgets.dose_response.PlateReport method) (spacr.qt.widgets.dose_response.PooledFit method) (spacr.qt.widgets.dose_response.SelectivityIndex method) summary_text() (in module spacr.qt.widgets.regression_results) (spacr.qt.screens.agreement.AgreementScreen method) (spacr.qt.screens.convert.ConvertScreen method) (spacr.qt.screens.model_compare.ModelCompareScreen method) (spacr.qt.screens.model_zoo.ModelZooScreen method) (spacr.qt.screens.train_compare.TrainCompareScreen method) SummaryField (class in spacr.regression_summary) SummarySection (class in spacr.regression_summary) sun() (in module spacr.qt.space) supplementary() (in module spacr.annotation) support() (spacr.train_compare.Series method) support_drops_at() (spacr.train_compare.Series method) supports_autocast() (in module spacr.accelerator) supports_bfloat16() (in module spacr.accelerator) supports_float64() (in module spacr.accelerator) supports_pause (spacr.qt.bridge.PipelineWorker property) (spacr.qt.bridge.RunHandle property) surface_distance_transform() (in module spacr.object_distances) SurrogateError SurrogateResult (class in spacr.surrogate) surviving() (spacr.measurement_scan.ScanResult method) surviving_setting_name() (in module spacr.settings) survivors() (spacr.gene_measurement_sweep.SweepResult method) suspicious() (in module spacr.read_background) swatch_colour() (spacr.qt.widgets.home.StageLegend static method) sweep() (in module spacr.gene_measurement_sweep) sweep_fraction_threshold() (in module spacr.fraction_calibration) sweep_grid() (in module spacr.sequencing_qc) sweep_inputs() (in module spacr.qt.widgets.sweep_panel) sweep_memory_budget() (in module spacr.qt.resource_cleanup) sweepable() (in module spacr.qt.screens.parameter_sweep) SweepInputsDropHandler (class in spacr.qt.dnd_handlers) SweepPanel (class in spacr.qt.widgets.sweep_panel) SweepResult (class in spacr.gene_measurement_sweep) SweepRunsPanel (class in spacr.qt.widgets.sweep_runs) SweepSpace (class in spacr.parameter_sweep) sync_folds() (in module spacr.qt.screens.mask) sync_from_settings() (spacr.qt.screens.map_barcodes.CategoryFoldSet method) sync_hover() (spacr.qt.widgets.dock.Dock method) synthesise() (in module spacr.annotation_validation) synthetic_read() (in module spacr.qt.synthetic) system_colour_scheme() (in module spacr.qt.theme) system_prompt() (in module spacr.methods_export) SystemPanel (class in spacr.qt.widgets.home)

T

tab_labels() (spacr.qt.widgets.cell_montage_view.CellMontageView method) tab_of() (spacr.qt.widgets.picture_settings_dialog.PictureSettingsDialog method) tab_titles() (spacr.qt.widgets.picture_settings_dialog.PictureSettingsDialog method) tab_widget() (in module spacr.qt.preferences_navigation) Table (class in spacr.report) table() (in module spacr.figures.stats) (in module spacr.localisation) (spacr.image_import.ImportPlan method) (spacr.qt.widgets.dose_response.DoseResponseSet method) (spacr.qt.widgets.measure_input_table.MeasureInputTable method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsGrid method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsModel method) table_columns() (in module spacr.agreement) (in module spacr.plate_qc) (in module spacr.tabular) table_format() (in module spacr.tabular) table_info() (spacr.qt.screens.db_browser.ReadOnlyDb method) table_item() (in module spacr.qt.widgets.sortable_table) table_key_columns() (in module spacr.schema) table_names() (in module spacr.filters) (in module spacr.merge_tables) (in module spacr.qt.dnd_handlers) (in module spacr.qt.screens.graph_builder) (spacr.qt.widgets.column_picker.ColumnPickerDialog method) table_rows() (spacr.qt.screens.power.PowerScreen method) (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) TableAssignment (class in spacr.measure) TableChip (class in spacr.qt.widgets.table_chip) TableDropHandler (class in spacr.qt.dnd_handlers) TableMerge (class in spacr.plate_measurements) tables() (in module spacr.plate_qc) (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.db_browser.ReadOnlyDb method) (spacr.qt.widgets.column_picker.SchemaReader method) tables_in() (in module spacr.qt.ask_for_the_path) TabularFormatError tabulate_records() (in module spacr.qt.regex_detect) TabulateScreen (class in spacr.qt.screens.tabulate) take() (in module spacr.restart_state) take_handover() (in module spacr.cli_make_masks) take_mask_back() (spacr.qt.screens.make_masks.NapariBridgeScreen method) take_over() (spacr.qt.widgets.fractal_travel.RegionTour method) take_the_backdrop_out_of_this_launch() (in module spacr.qt.crash_recovery) take_the_scroll_arrows_off() (in module spacr.qt.theme) take_the_setup_flags() (in module spacr.qt.setup_screen) takeAt() (spacr.qt.widgets.column_aligned_row.ColumnAlignedRow method) (spacr.qt.widgets.flow.FlowLayout method) taper_region_to_intensity() (in module spacr.qt.wand_rescue) target() (spacr.qt.widgets.collapsible_splitter.FocusCollapse method) (spacr.qt.widgets.model_share_dialog.ContributeMasksDialog method) target_at() (spacr.qt.widgets.fractal_travel.RegionTour method) target_for() (spacr.chaining.DropResolution method) (spacr.foreign.ImportPlan method) target_height() (spacr.qt.widgets.height_grip.HeightGrip method) target_is_observable (spacr.cell_montage.ScoreWindow property) target_name() (in module spacr.convert) target_render_size() (in module spacr.qt.widgets.fractal_travel) target_repo() (in module spacr.qt.widgets.model_share) targets() (spacr.foreign.ImportPlan method) targets_from_digest() (in module spacr.qt.widgets.qc_field_browser) TarImageDataset (class in spacr.io) TAxisNotPresentError tell() (spacr.io.LazyCropPNG method) template_keys() (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) temporal_assignment_policy() (in module spacr.timeflows_validation) terminate_all_streams() (in module spacr.qt.ai.providers) terms_text() (in module spacr.qt.terms) terms_were_read() (spacr.qt.widgets.setup_slides.SetupSlides method) test_cellpose_model() (in module spacr.submodules) test_model_core() (in module spacr.deep_spacr) test_model_performance() (in module spacr.deep_spacr) TestDataChooser (class in spacr.qt.widgets.test_data_chooser) tested_family() (in module spacr.hits) text (spacr.gene_facts.Segment property) (spacr.qt.widgets.tile.Tile property) (spacr.regression_summary.SummaryField property) text() (spacr.qt.ai.manuscript.ManuscriptDraft method) (spacr.qt.screens.methods_export.MethodsExportScreen method) (spacr.qt.widgets.ai_toggle_label.AiToggleLabel method) (spacr.qt.widgets.eliding.ProgressLine method) (spacr.qt.widgets.percentile_pair.PercentilePair method) (spacr.regression_summary.RunSummary method) (spacr.seg_qc.Finding method) text_column() (spacr.qt.widgets.hover_tooltip.HoverTooltip method) text_label (spacr.qt.widgets.home.AppTile property) (spacr.qt.widgets.tile.HTile property) text_label() (spacr.qt.widgets.hover_tooltip.HoverTooltip method) text_legend() (in module spacr.figures.style) text_near() (in module spacr.plaque_papers) text_options() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) text_options_from_settings() (in module spacr.plaque_papers) text_values() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) TextOptions (class in spacr.plaque_papers) the_advisor_can_run() (spacr.qt.screens.app_screen.AppScreen method) the_load_failed() (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) the_load_succeeded() (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) the_name_carries_the_help() (spacr.qt.screens.app_screen.AppScreen method) the_plan() (spacr.qt.widgets.import_workbench.ImportWorkbench method) theme() (spacr.qt.widgets.ambient.AmbientWidget method) theme_background_path() (in module spacr.qt.preferences) theme_cache_dir() (in module spacr.qt.sound_synth) theme_choices() (in module spacr.qt.preferences) theme_description() (in module spacr.qt.preferences) theme_fingerprint() (in module spacr.qt.sound_synth) theme_for() (in module spacr.qt.imagery) (in module spacr.qt.night_themes) theme_ink() (in module spacr.figure_style) theme_label() (in module spacr.qt.widgets.ambient) theme_note() (in module spacr.qt.widgets.ambient) theme_target() (in module spacr.figures.style) themed_array() (in module spacr.qt.iconset) themed_pixmap() (in module spacr.qt.iconset) themed_qimage() (in module spacr.qt.iconset) thread_has_stopped() (in module spacr.qt.bridge) threshold() (spacr.qt.widgets.outlier_model.OutlierSpec method) threshold_algorithms() (in module spacr.qt.mask_engine) threshold_modes() (in module spacr.qt.cpu_modes) threshold_sweep() (in module spacr.sequencing_qc) ThresholdChoice (class in spacr.sequencing_qc) ThresholdGate (class in spacr.qt.widgets.gate_spec) thresholds() (spacr.qt.widgets.gate_spec.BoxGate method) (spacr.qt.widgets.gate_spec.CylinderGate method) (spacr.qt.widgets.gate_spec.Gate method) (spacr.qt.widgets.gate_spec.PrismGate method) (spacr.qt.widgets.gate_spec.RectGate method) thresholds_from_settings() (in module spacr.seg_qc) thumbnail_image() (in module spacr.qt.widgets.umap_search_viewer) thumbnail_png() (in module spacr.flowview.thumbs) ThumbnailCache (class in spacr.flowview.thumbs) thumbnails() (spacr.qt.widgets.cell_montage_view.CellMontageView method) tightest (spacr.qt.resource_cleanup.DiskReport property) Tile (class in spacr.align) (class in spacr.qt.widgets.tile) tile (spacr.qt.widgets.gene_panel.GenePanel property) (spacr.qt.widgets.gene_tile.GeneTilePanel property) tile_info_text() (spacr.qt.screens.align.AlignScreen method) tile_palette() (in module spacr.qt.screens.annotate) tile_policy() (spacr.qt.screens.image_import.ImageImportScreen method) tile_rects() (spacr.qt.screens.align.TileLayoutWidget method) tile_sort_key() (in module spacr.qt.app) tiled_apps() (in module spacr.qt.app) TileLayoutWidget (class in spacr.qt.screens.align) tiles_as_fields() (spacr.qt.screens.image_import.ImageImportScreen method) time() (spacr.ome_zarr.Axis class method) (spacr.qt.widgets.ambient.AmbientWidget method) time_axis (spacr.ome_zarr.OmeZarrImage property) time_id() (in module spacr.schema) time_index() (in module spacr.schema) time_module() (in module spacr.logging_util) time_targets() (in module spacr.timeflows_model) timed() (in module spacr.logging_util) timeflows_loss() (in module spacr.timeflows_model) TimeflowsNet() (in module spacr.timeflows_model) TimeflowsNet._Net.__init__() (in module spacr.timeflows_model) TimeflowsNet._Net.forward() (in module spacr.timeflows_model) TimeflowsNet._Net.head_parameters() (in module spacr.timeflows_model) timelapse_and_motility_keys() (in module spacr.qt.screens.settings_model) TimelapseKeyMismatch TimelapseMoviePanel (class in spacr.qt.widgets.timelapse_movie) TimelapsePreviewPanel (class in spacr.qt.widgets.timelapse_preview) TimelapseRequest (class in spacr.qt.widgets.timelapse_preview) Timer (class in spacr.logging_util) title (spacr.gene_tile.GeneTile property) title() (spacr.qt.widgets.collapsible_section.CollapsibleSection method) (spacr.qt.widgets.graph_spec.FacetPanel method) (spacr.qt.widgets.measurement_scan_panel.WorkflowStep method) (spacr.qt.widgets.section.Section method) (spacr.qt.widgets.trellis_spec.TrellisPanel method) title_for() (in module spacr.qt.imagery) to_bottom() (spacr.layers.LayerStack method) to_crop_settings() (in module spacr.picture_settings) to_csv() (spacr.counting.CountingSession method) (spacr.qt.widgets.pivot_spec.PivotResult method) to_cv2_bgr() (in module spacr.crops) to_data() (spacr.layers.Layer method) (spacr.layers.Spacing method) to_dict() (spacr.active_learning.StoppingVerdict method) (spacr.artifacts.Artifact method) (spacr.batch.Job method) (spacr.batch.Queue method) (spacr.batch_correction.BatchCorrectionReport method) (spacr.classifier_evaluation.FoldLeakageAudit method) (spacr.classifier_evaluation.LeakageReport method) (spacr.classifier_evaluation.SplitReport method) (spacr.classify_classes.ClassRule method) (spacr.curation.CurationEdit method) (spacr.curation.CurationLog method) (spacr.database_concurrency.ConcurrencyProbeResult method) (spacr.database_concurrency.DatabaseHealth method) (spacr.errors.Failure method) (spacr.errors.RunLedger method) (spacr.external_masks.InputGroup method) (spacr.feature_dict.FeatureDoc method) (spacr.feature_dict.FeatureEntry method) (spacr.flowview.model.RunGraph method) (spacr.hits.Hit method) (spacr.macro.MacroStep method) (spacr.methods_export.Verification method) (spacr.pipeline_graph.Edge method) (spacr.pipeline_graph.ModuleGraph method) (spacr.pipeline_graph.Node method) (spacr.pipeline_graph.PipelineGraph method) (spacr.profiler.Profile method) (spacr.profiler.Sensitivity method) (spacr.qt.ai.manuscript.ManuscriptDraft method) (spacr.qt.widgets.control_chart.ControlChartSpec method) (spacr.qt.widgets.dose_response.DoseResponseSpec method) (spacr.qt.widgets.feature_rank.ExplorerSpec method) (spacr.qt.widgets.formula.ColumnFormula method) (spacr.qt.widgets.formula.FormulaSet method) (spacr.qt.widgets.gate_spec.BoxGate method) (spacr.qt.widgets.gate_spec.CompositeGate method) (spacr.qt.widgets.gate_spec.CylinderGate method) (spacr.qt.widgets.gate_spec.EllipseGate method) (spacr.qt.widgets.gate_spec.Gate method) (spacr.qt.widgets.gate_spec.GateSet method) (spacr.qt.widgets.gate_spec.PolygonGate method) (spacr.qt.widgets.gate_spec.PrismGate method) (spacr.qt.widgets.gate_spec.RectGate method) (spacr.qt.widgets.gate_spec.ThresholdGate method) (spacr.qt.widgets.gate_spec.ViewGate method) (spacr.qt.widgets.graph_spec.GraphSpec method) (spacr.qt.widgets.outlier_model.OutlierSpec method) (spacr.qt.widgets.pca_model.PCASpec method) (spacr.qt.widgets.pivot_spec.PivotSpec method) (spacr.qt.widgets.trellis_spec.TrellisSpec method) (spacr.remote_execution.ExecutionProfile method) (spacr.remote_execution.RemoteJob method) (spacr.runctx.RunContext method) (spacr.runctx.SeedReport method) (spacr.runctx.SkipRecord method) (spacr.schema.FieldID method) (spacr.schema.ObjectID method) (spacr.umap_search.UmapRecipe method) (spacr.volcano_style.VolcanoStyle method)

to_dicts() (spacr.umap_search.SearchTable method) to_dot() (in module spacr.pipeline_graph) to_ellipse() (spacr.qt.widgets.gate_spec.CylinderGate method) to_frame() (spacr.convert.ConversionPlan method) (spacr.counting.CountingSession method) (spacr.curation.TrackCuration method) (spacr.embeddings.EmbeddingResult method) (spacr.hits.HitList method) (spacr.power_model.ModelData method) (spacr.profiler.Profile method) (spacr.qt.widgets.pivot_spec.PivotResult method) to_html() (spacr.gene_facts.GeneFacts method) (spacr.gene_tile.GeneTile method) (spacr.hits.HitList method) to_json() (in module spacr.macro) (spacr.errors.RunLedger method) (spacr.flowview.model.RunGraph method) (spacr.qt.recipes.Recipe method) (spacr.qt.widgets.control_chart.ControlChartSpec method) (spacr.qt.widgets.dose_response.DoseResponseSpec method) (spacr.qt.widgets.dose_response.PlateSpec method) (spacr.qt.widgets.feature_rank.ExplorerSpec method) (spacr.qt.widgets.formula.ColumnFormula method) (spacr.qt.widgets.formula.FormulaSet method) (spacr.qt.widgets.gate_spec.GateSet method) (spacr.qt.widgets.graph_spec.GraphSpec method) (spacr.qt.widgets.outlier_model.OutlierSpec method) (spacr.qt.widgets.pca_model.PCASpec method) (spacr.qt.widgets.pivot_spec.PivotSpec method) (spacr.qt.widgets.trellis_spec.TrellisSpec method) to_long() (spacr.qt.widgets.pivot_spec.PivotResult method) to_markdown() (spacr.hits.HitList method) to_ngff() (spacr.ome_zarr.Axis method) to_pixmap() (spacr.qt.widgets.gene_panel.GenePanel method) (spacr.qt.widgets.gene_tile.GeneTilePanel method) to_polygon() (spacr.qt.widgets.gate_spec.PrismGate method) to_problem() (spacr.chaining.StaleNote method) to_qimage() (in module spacr.qt.space) (in module spacr.qt.widgets.animation_zoom) to_qpixmap() (in module spacr.qt.widgets.segmentation_views) to_record() (spacr.foreign.ResolvedColumn method) to_rect() (spacr.qt.widgets.gate_spec.BoxGate method) to_rgb() (in module spacr.figure_style) to_rgb8() (in module spacr.qt.widgets.segmentation_views) to_rgba() (in module spacr.layers) to_row() (spacr.convert.Mapping method) (spacr.foreign.ColumnMap method) to_settings() (spacr.api.MaskConfig method) (spacr.api.MeasureConfig method) to_settings_fragment() (in module spacr.qt.widgets.plate_layout) to_shape() (spacr.roi.RegionOfInterest method) to_spacr_mask() (in module spacr.napari_bridge) to_table() (in module spacr.object_settings_table) to_text() (in module spacr.qt.widgets.channel_picker) (in module spacr.well_spec) (spacr.gene_facts.GeneFacts method) (spacr.gene_tile.GeneTile method) to_top() (spacr.layers.LayerStack method) to_world() (spacr.layers.Layer method) (spacr.layers.Spacing method) to_z_spec() (spacr.zstack.TStackSpec method) Toggle (class in spacr.qt.widgets.toggle) toggle() (spacr.counting.CountingSession method) (spacr.qt.widgets.drawer.EdgeDrawer method) (spacr.qt.widgets.foldable.Folder method) toggle_animation() (spacr.qt.widgets.hover_tooltip.HoverTooltip method) toggle_app_drawer() (spacr.qt.app.MainWindow method) toggle_fullscreen() (spacr.qt.app.MainWindow method) toggle_key() (spacr.qt.widgets.fast_plots.FastPlot method) toggle_pane() (spacr.qt.widgets.collapsible_splitter.CollapsibleSplitter method) toggle_play() (spacr.qt.widgets.timelapse_movie.FovMovie method) toggle_quarantine() (spacr.qt.widgets.qc_field_browser.QCFieldBrowser method) toggle_section() (spacr.qt.widgets.console_panel.ConsolePanel method) (spacr.qt.widgets.dock.Dock method) (spacr.qt.widgets.figure_grid_view.FigureGridView method) toggle_strip() (spacr.qt.widgets.timelapse_movie.FovMovie method) toggled_setting() (spacr.qt.widgets.hover_tooltip.HoverTooltip method) tokenise() (in module spacr.image_import) (in module spacr.regex_infer) tokenize() (in module spacr.qt.widgets.formula) tokens() (spacr.qt.widgets.dna_rain.DnaRainEngine method) TokenSlot (class in spacr.image_import) tone_exposure() (in module spacr.qt.space) too_thin_for() (in module spacr.graph_types) tool (spacr.qt.counting_tool.CountingPanel property) (spacr.qt.curation_tool.BrushPanel property) (spacr.qt.layer_viewer.LayerCanvas property) (spacr.qt.widgets.gate_editor.GateCanvas property) tool_label() (spacr.qt.widgets.cli_setup_panel.CliSetupPanel method) tool_row_entries() (in module spacr.qt.screens.make_masks) tooltip_for() (spacr.qt.screens.settings_model.SettingsWidgets method) tooltip_policy() (in module spacr.qt.tooltip_policy) tooltip_text_for() (in module spacr.qt.tooltip_policy) tooltips_enabled() (in module spacr.qt.tooltip_policy) top() (spacr.hits.HitList method) (spacr.qt.widgets.feature_rank.ExplorerResult method) (spacr.surrogate.SurrogateResult method) top_features() (spacr.qt.widgets.pca_model.PCAResult method) toPlainText() (spacr.qt.widgets.folding_summary.FoldingSummaryView method) (spacr.qt.widgets.pipeline_details.PipelineDetails method) topology_reason() (spacr.qt.widgets.gene_panel.GenePanel method) torch_available() (in module spacr.mixed_gpu) torch_device (spacr.accelerator.Accelerator property) torch_device() (in module spacr.accelerator) torch_generator() (in module spacr.runctx) TorchMixedResults (class in spacr.mixed_gpu) TorchModel (class in spacr.utils) TorchModel_v2 (class in spacr.utils) total (spacr.counting.CountingSession property) (spacr.qt.widgets.preview_controls.ImageSetSampler property) total_bytes (spacr.flowview.thumbs.ThumbnailCache property) total_bytes() (in module spacr.example_data) (in module spacr.sra) total_fragments (spacr.model_compare.ComparisonReport property) total_frames_painted() (in module spacr.qt.widgets.ambient) total_memory_gib() (in module spacr.qt.laptop_mode) total_merged_away (spacr.model_compare.ComparisonReport property) total_merges (spacr.model_compare.ComparisonReport property) total_missing_objects_a (spacr.model_compare.ComparisonReport property) total_new_objects_b (spacr.model_compare.ComparisonReport property) total_objects (spacr.model_zoo.BenchmarkResult property) total_objects_a (spacr.model_compare.ComparisonReport property) total_objects_b (spacr.model_compare.ComparisonReport property) total_rows (spacr.multi_database.MergePlan property) total_size() (in module spacr.screen_data) total_splits (spacr.model_compare.ComparisonReport property) TotalsPanel (class in spacr.qt.widgets.home) touched (spacr.napari_bridge.CorrectionResult property) touches_border() (in module spacr.object_classifier) TourStep (class in spacr.qt.first_run) toxodb_url() (in module spacr.gene_tile) tr() (in module spacr.qt.i18n) tra_score() (in module spacr.timeflows_baseline) track_4d() (in module spacr.zstack) track_colour() (in module spacr.qt.widgets.timelapse_preview) track_ids (spacr.curation.TrackCuration property) track_masks_from_ctc() (in module spacr.timeflows_model) track_metrics() (in module spacr.qt.widgets.motility_preview) track_stats() (in module spacr.qt.widgets.timelapse_preview) TrackBackend (class in spacr.zstack) trackball() (in module spacr.qt.widgets.volume_view) TrackCuration (class in spacr.curation) TrackCurationPanel (class in spacr.qt.curation_tool) TrackerIsTwoDError TrackerUnavailable tracking_graph() (in module spacr.timeflows_baseline) TrackResult (class in spacr.zstack) TrackStats (class in spacr.qt.widgets.timelapse_preview) train_cellpose() (in module spacr.submodules) train_data_dir() (spacr.qt.widgets.model_share_dialog.ShareDialog method) train_model() (in module spacr.deep_spacr) train_screen (spacr.qt.screens.train_cellpose.CellposeWorkbenchScreen property) train_test_model() (in module spacr.deep_spacr) train_timeflows() (in module spacr.timeflows_model) train_timeflows.report_validation() (in module spacr.timeflows_model) train_timeflows.run() (in module spacr.timeflows_model) TrainCompareScreen (class in spacr.qt.screens.train_compare) trained_checkpoint() (spacr.qt.screens.train_cellpose.CellposeWorkbenchScreen method) training_dataset_from_annotation() (in module spacr.io) training_dataset_from_annotation_metadata() (in module spacr.io) training_preprocessing() (in module spacr.classification_pixels) training_wells() (in module spacr.classifier_quality) TrainingBasisError TrainingMonitor (class in spacr.qt.widgets.training_monitor) TrainingRun (class in spacr.train_compare) TrainingRunsDropHandler (class in spacr.qt.dnd_handlers) transaction() (in module spacr.database_concurrency) transcript() (spacr.qt.widgets.gate_console.GateConsole method) transformed() (in module spacr.response_distribution) transforms_for() (in module spacr.inference_augmentation) translated() (spacr.layers.Spacing method) (spacr.qt.widgets.gate_spec.BoxGate method) (spacr.qt.widgets.gate_spec.CompositeGate method) (spacr.qt.widgets.gate_spec.CylinderGate method) (spacr.qt.widgets.gate_spec.EllipseGate method) (spacr.qt.widgets.gate_spec.Gate method) (spacr.qt.widgets.gate_spec.PolygonGate method) (spacr.qt.widgets.gate_spec.PrismGate method) (spacr.qt.widgets.gate_spec.RectGate method) (spacr.qt.widgets.gate_spec.ThresholdGate method) (spacr.qt.widgets.gate_spec.ViewGate method) treatment_ssmd() (in module spacr.sp_stats) tree() (spacr.import_plan.ImportPlan method) tree_for() (in module spacr.lineage) tree_item() (in module spacr.qt.widgets.sortable_table) tree_lines() (spacr.import_plan.ImportPlan method) tree_sample() (in module spacr.resource_log) Trellis (class in spacr.qt.widgets.trellis_spec) trellis (spacr.qt.widgets.trellis_view.TrellisCanvas property) trellis() (in module spacr.qt.widgets.trellis_spec) trellis_spec (spacr.qt.widgets.trellis_view.TrellisCanvas property) TrellisCanvas (class in spacr.qt.widgets.trellis_view) TrellisPanel (class in spacr.qt.widgets.trellis_spec) TrellisPanelWidget (class in spacr.qt.widgets.trellis_view) TrellisScreen (class in spacr.qt.screens.trellis) TrellisSpec (class in spacr.qt.widgets.trellis_spec) Trial (class in spacr.hyperparam) trials_within_noise() (spacr.hyperparam.SearchResult method) triangle_descriptors() (in module spacr.ops_merge) trigger() (spacr.qt.widgets.flash.Flash method) trim_directional_runaway() (in module spacr.qt.wand_rescue) true_positives (spacr.scorecard.Match property) truncated (spacr.qt.widgets.timelapse_preview.FrameSequence property) truncated_cells (spacr.qt.widgets.pivot_builder.PivotTable property) truncated_fraction (spacr.zstack.TrackResult property) (spacr.zstack.ZStackResult property) truncated_tracks (spacr.zstack.TrackResult property) TStackError TStackResult (class in spacr.zstack) TStackSpec (class in spacr.zstack) tukey_fences() (in module spacr.qt.widgets.outlier_model) tutorial_url() (in module spacr.qt.tutorials) type_and_search() (spacr.qt.help_search.HelpSearchField method) type_of_mark() (in module spacr.graph_types) types_for() (in module spacr.graph_types)

U

umap_available() (in module spacr.hyperparam) umap_checkpoint_path() (in module spacr.hyperparam) umap_objective_scores() (in module spacr.hyperparam) umap_search() (in module spacr.hyperparam) umap_values() (spacr.qt.widgets.figure_settings.FigureSettingsDialog method) UmapAppearanceDialog (class in spacr.qt.widgets.umap_search_viewer) UmapDisplaySettings (class in spacr.qt.widgets.umap_explorer) UmapEmbeddingView (class in spacr.qt.widgets.umap_search_viewer) UmapExplorer (class in spacr.qt.widgets.umap_search_viewer) UmapFigureSettings (class in spacr.qt.widgets.umap_figure_settings) UmapGalleryDialog (class in spacr.qt.widgets.umap_search_viewer) UmapRecipe (class in spacr.umap_search) UmapSearchSettingsDialog (class in spacr.qt.screens.hyperparam) Unary (class in spacr.qt.widgets.formula) unassessed_apps() (in module spacr.qt.maturity) unassigned() (spacr.qt.widgets.measure_input_table.MeasureInputTable method) unattached_plates() (in module spacr.plate_measurements) unavailable_reason() (in module spacr.gene_facts) unblind() (in module spacr.run_journal) uncalibrated (spacr.foreign.ImportPlan property) uncertainty_scores() (in module spacr.active_learning) Undecided (class in spacr.settings_advisor) undo() (spacr.counting.CountingSession method) (spacr.curation.MaskCuration method) (spacr.qt.counting_tool.CountingPanel method) (spacr.qt.curation_tool.BrushPanel method) (spacr.qt.mask_engine.MaskHistory method) (spacr.qt.roi_tool.RoiPen method) (spacr.qt.screens.model_explanation.InvestigateHitPanel method) undo_hit_promotion() (in module spacr.hit_attribution) uninfected_cells_were_measured() (in module spacr.infection) uninstall() (in module spacr.qt.gc_policy) uninstall_backend() (in module spacr.qt.widgets.model_zoo_picker) uninstall_field_fade() (in module spacr.qt.widgets.field_fade) uninstall_glass_everywhere() (in module spacr.qt.widgets.glass) uninstall_run_id_logging() (in module spacr.runctx) uninstall_selected() (spacr.qt.screens.model_zoo.ModelZooScreen method) uninstall_tooltip_policy() (in module spacr.qt.tooltip_policy) unit (spacr.qt.widgets.motility_preview.Calibration property) units (spacr.layers.LayerStack property) UnknownAnisotropyError UnknownDisplacementError UnknownMethodError UnknownModule unlink_selection() (spacr.qt.linked_selection.LinkedView method) unlock() (spacr.layers.CanvasLink method) unmapped (spacr.image_import.ImportPlan property) unmapped_columns() (spacr.qt.screens.foreign.ForeignScreen method) unmapped_read_fractions() (in module spacr.sequencing_qc) unmatched_exclusions() (in module spacr.read_background) unparse() (in module spacr.qt.widgets.formula) unpin() (spacr.chaining.PinStore method) unregister() (in module spacr.qt.chaining) (in module spacr.qt.prerun) (in module spacr.workspace) (spacr.qt.bridge.RunRegistry method)

unregister_app() (in module spacr.qt.app) unregister_defaults() (in module spacr.settings) unregister_object_opener() (in module spacr.qt.linked_selection) (spacr.qt.linked_selection.LinkedSelection method) unregister_preprocessing_hook() (in module spacr.measure_hooks) unregister_preview() (in module spacr.qt.preview_registry) unregister_region_filter_hook() (in module spacr.measure_hooks) unregister_steps() (in module spacr.qt.walkthrough) unregister_widget_qss() (in module spacr.qt.theme) unregister_workspace() (spacr.qt.screens.app_screen.AppScreen method) unscored_wells() (spacr.qt.widgets.outlier_model.OutlierResult method) unseen_records() (in module spacr.ops_objects) unsubscribe() (spacr.curation.MaskCuration method) (spacr.layers.CanvasLink method) (spacr.layers.LayerStack method) unsubscribe_readiness() (in module spacr.qt.timing) untyped_object_key() (in module spacr.selection) untyped_object_keys() (in module spacr.selection) unwrap() (in module spacr.ops_register) update() (spacr.checkpoint.CheckpointStore method) (spacr.qt.plate_queue.PlateQueue method) update_cell() (spacr.qt.screens.db_browser.WritableDb method) update_run() (spacr.qt.widgets.sweep_runs.SweepRunsPanel method) update_scores_and_get_cm() (in module spacr.sim) UpdateInfo (class in spacr.updater) upgrade_available (spacr.updater.UpdateInfo property) upgrade_command() (in module spacr.updater) upgrade_starplast() (in module spacr._starplast) upload() (spacr.qt.widgets.model_share_dialog.ContributeMasksDialog method) (spacr.qt.widgets.plaque_preview.ContributeDialog method) upload_with_own_login() (in module spacr.qt.widgets.model_share_dialog) upstream() (spacr.pipeline_graph.PipelineGraph method) upstream_modules() (in module spacr.ports) upstream_of() (spacr.artifacts.Registry method) url() (spacr.qt.widgets.api_help_label.ApiHelpLabel method) (spacr.qt.widgets.info_link.InfoLink method) usable (spacr.classifier_quality.Confusion property) (spacr.diameter.DiameterEstimate property) (spacr.qt.widgets.dose_response.PlateReport property) usable_cores() (in module spacr.qt.laptop_mode) usage (spacr.qt.screens.data_manager.DataManagerScreen property) UsageBar (class in spacr.qt.widgets.usage_bar) use() (spacr.qt.widgets.model_share_dialog.ContributeMasksDialog method) use_a_style_that_honours_the_palette() (in module spacr.qt.theme) use_next_label() (spacr.qt.curation_tool.BrushPanel method) use_open_sans_for_figures() (in module spacr.figure_font) use_well_hierarchy() (spacr.qt.widgets.pivot_builder.PivotPanel method) used_columns() (spacr.qt.widgets.graph_spec.GraphSpec method) (spacr.qt.widgets.pivot_spec.PivotSpec method) user_dir() (in module spacr.qt.imagery) user_overrides() (in module spacr.figures.style) uses_ambient_background() (in module spacr.qt.screens.app_screen) uses_whole_table() (spacr.qt.widgets.formula.ColumnFormula method)

V

vacuole_links() (in module spacr.host_pathogen) validate() (in module spacr.crop_source) (spacr.qt.widgets.power_design.DesignSpec method) (spacr.remote_execution.ExecutionProfile method) (spacr.schema.ObjectTableSchema method) validate_and_adjust_beta_params() (in module spacr.sim) validate_animations_show_something() (in module spacr.setting_animations) validate_border_animations_remove_only_edge_objects() (in module spacr.setting_animations) validate_column_name() (in module spacr.qt.widgets.column_picker) validate_destination() (spacr.qt.secondary_masks.PrimaryMaskSource method) validate_job() (in module spacr.batch) validate_measurement_psf_history() (in module spacr.psf_measurement) validate_merged_field() (in module spacr.resume) validate_module_summaries_other() (in module spacr.qt.i18n_module_summaries_other) validate_module_summaries_west() (in module spacr.qt.i18n_module_summaries_west) validate_now() (spacr.qt.screens.batch.BatchScreen method) validate_object_table_frame() (in module spacr.schema) validate_policy() (in module spacr.classification_pixels) validate_psf_resume() (in module spacr.psf_pipeline) validate_queue() (in module spacr.batch) validate_raw_predicate() (in module spacr.qt.screens.db_browser) validate_records() (in module spacr.qt.regex_detect) validate_segmentation_illumination_resume() (in module spacr.illumination) validate_setting_animation_assets() (in module spacr.setting_animations) validate_settings() (in module spacr.validate) validate_style() (in module spacr.volcano_style) validate_timeflows() (in module spacr.timeflows_validation) validate_where() (spacr.qt.screens.db_browser.ReadOnlyDb method) validated() (spacr.qt.widgets.fractal_travel.Settings method) (spacr.regression_annotation.AnnotationRequest method) value() (spacr.gene_facts.GeneFacts method) (spacr.qt.screens.db_browser.PreviewModel method) (spacr.qt.widgets.channel_picker.ChannelPicker method) (spacr.qt.widgets.class_editor.ClassEditorWidget method) (spacr.qt.widgets.eliding.ProgressLine method) (spacr.qt.widgets.percentile_pair.PercentilePair method) (spacr.qt.widgets.plate_map_picker.PlateMapPicker method) value_at() (spacr.qt.screens.image_import.ProposalModel method) (spacr.qt.widgets.object_settings_grid.ObjectSettingsModel method) (spacr.qt.widgets.pivot_spec.PivotResult method) value_axes() (in module spacr.qt.widgets.graph_spec) values() (spacr.qt.widgets.model_share_dialog.ShareDialog method) (spacr.qt.widgets.picture_settings_dialog.PictureSettingsDialog method) (spacr.qt.widgets.plaque_preview.PaperDialog method) (spacr.qt.widgets.umap_explorer.UmapDisplaySettings method) (spacr.qt.widgets.umap_figure_settings.UmapFigureSettings method) (spacr.qt.widgets.umap_search_viewer.UmapAppearanceDialog method) (spacr.train_compare.Series method) values_equal() (in module spacr.run_journal) values_in() (in module spacr.classify_classes) vanished (spacr.run_compare.HitDiff property) variable() (spacr.qt.screens.profiler.ProfilerScreen method) variance_frame() (spacr.qt.widgets.pca_model.PCAResult method) variance_inflation_factors() (in module spacr.regression_diagnostics) (in module spacr.regression_qc) variant_inputs() (in module spacr.import_examples) varies (spacr.image_import.TokenSlot property) veil_color() (in module spacr.qt.iconset) Verdict (class in spacr.annotation_validation)

verdict (spacr.seg_qc.Scorecard property) verdict() (spacr.attribution.Agreement method) (spacr.attribution.SanityCheck method) (spacr.qt.screens.regression.DiagnosticsOpener method) verdict_column() (in module spacr.suggest) verdict_contradicts() (in module spacr.qt.screens.annotate) verdict_for() (in module spacr.qt.widgets.measurement_scan_panel) verdict_ink() (in module spacr.qt.widgets.setup_slides) verdict_text() (spacr.qt.screens.run_compare.RunCompareScreen method) Verification (class in spacr.methods_export) verify() (in module spacr.model_zoo) verify_holdout() (in module spacr.scorecard) verify_numbers() (in module spacr.methods_export) version_changed (spacr.run_compare.Comparability property) version_note() (in module spacr.qt.recipes) versioned_path() (in module spacr.model_zoo) view() (spacr.qt.widgets.segmentation_views.SegmentationViews method) view_axes() (in module spacr.qt.widgets.volume_view) VIEW_HINTS (in module spacr.qt.widgets.segmentation_views) view_projection() (spacr.qt.widgets.gate_editor.GateCanvas method) viewer() (spacr.qt.screens.make_masks.NapariBridgeScreen method) ViewGate (class in spacr.qt.widgets.gate_spec) VIEWS (in module spacr.qt.widgets.segmentation_views) views (spacr.qt.ortho_view.OrthoView property) views() (spacr.qt.widgets.plaque_preview.PlaquePreviewPanel method) (spacr.qt.widgets.segmentation_views.SegmentationViews method) Violation (class in spacr.qt.widgets.control_chart) violations_frame() (spacr.qt.widgets.control_chart.ControlChartResult method) vis_dists() (in module spacr.sim) visible (spacr.layers.Layer property) visible() (spacr.qt.linked_selection.LinkedSelection method) visible_apps() (in module spacr.qt.app) visible_caveat_text() (spacr.qt.screens.power.PowerScreen method) visible_column_names() (spacr.qt.widgets.column_picker.ColumnPickerDialog method) visible_columns() (spacr.qt.screens.db_browser.DbBrowserScreen method) (spacr.qt.screens.db_browser.PreviewModel method) (spacr.qt.widgets.graph_builder.ColumnWell method) visible_keys() (spacr.qt.settings_search.SettingsSearchBar method) visible_points() (spacr.qt.widgets.umap_explorer.ImageUmapExplorer method) visible_rows() (spacr.qt.screens.db_browser.DbBrowserScreen method) visible_text() (spacr.qt.screens.power.CaveatPanel method) (spacr.qt.screens.qc_dashboard.QCDashboardScreen method) visualize_all() (in module spacr.sim) visualize_cellpose_masks() (in module spacr.plot) visualize_classes() (in module spacr.deep_spacr) visualize_integrated_gradients() (in module spacr.deep_spacr) visualize_masks() (in module spacr.plot) visualize_smooth_grad() (in module spacr.deep_spacr) volcano() (in module spacr.figures.panels) volcano_plot() (in module spacr.plot) VolcanoExplorer (class in spacr.qt.widgets.volcano_explorer) VolcanoPlot (class in spacr.qt.widgets.fast_plots) VolcanoStyle (class in spacr.volcano_style) volume_axis_map() (spacr.qt.widgets.gate_editor.GateCanvas method) volume_shape() (spacr.qt.widgets.gate_editor.GateCanvas method) (spacr.qt.widgets.gate_editor.GateEditorPanel method) volume_stats() (in module spacr.zstack) volume_tracks() (in module spacr.zstack) voxel_size (spacr.zstack.TStackSpec property)

W

wait() (spacr.qt.model_install.CheckpointDownload method) wait_for_parked_threads() (in module spacr.qt.bridge) wait_if_paused() (spacr.qt.bridge.PauseGate method) wal_is_safe_here() (in module spacr.database_concurrency) walk() (spacr.lineage.LineageNode method) (spacr.qt.screens.settings_model.SettingsSection method) walk_axes() (spacr.qt.screens.hyperparam.HyperparamPanel method) walk_clusters() (in module spacr.umap_search) walk_recipes() (in module spacr.umap_search) walk_selected_clusters() (spacr.qt.screens.hyperparam.HyperparamPanel method) walk_start_for() (spacr.qt.screens.hyperparam.HyperparamPanel method) WalkAxesDialog (class in spacr.qt.screens.hyperparam) WalkStep (class in spacr.qt.walkthrough) wand_region() (in module spacr.qt.wand_rescue) wanted() (in module spacr.qt.laptop_mode) wants() (spacr.qt.sound.SoundSettings method) wants_a_target() (spacr.qt.widgets.fractal_mandelbrot.SteeringCamera method) wants_glass() (in module spacr.qt.widgets.glass) wants_resizing() (in module spacr.qt.dialogs) warm() (in module spacr.gene_facts) warm_annotation() (in module spacr.qt.widgets.gene_panel) warm_for() (spacr.qt.widgets.gene_panel.GenePanel method) warm_now() (spacr.qt.widgets.gene_panel.GenePanel method) warn_if_hooks_will_not_reach_workers() (in module spacr.measure_hooks) warning_text() (in module spacr.restart_state) (spacr.qt.screens.model_compare.ModelCompareScreen method) warnings (spacr.ports.Readiness property) (spacr.run_compare.Comparability property) was_seen() (in module spacr.qt.walkthrough) was_tour_shown() (in module spacr.qt.first_run) watch() (spacr.qt.widgets.collapsible_splitter.FocusCollapse method) watch_interactive() (in module spacr.qt.timing) watch_the_gui_thread() (in module spacr.qt.timing) watch_this_application() (in module spacr.qt.stall_watch) watches_input (spacr.qt.sound.SoundSettings property) wav_seconds() (in module spacr.qt.sound) Well (class in spacr.plaque) well (spacr.schema.FieldID property) well_at() (spacr.qt.screens.experiment_design.ExperimentDesignScreen method) (spacr.qt.screens.plate_view.PlateGridWidget method) (spacr.qt.widgets.plate_map_picker.PlateMapPicker method) well_column() (in module spacr.figures.distributions) well_count() (spacr.qt.screens.plate_view.PlateGridWidget method) well_fractions() (in module spacr.fraction_calibration) well_frame() (spacr.qt.widgets.outlier_model.OutlierResult method) well_from_image_name() (in module spacr.omero) well_id() (in module spacr.plate_qc) (in module spacr.schema) well_info_text() (spacr.qt.screens.plate_view.PlateViewScreen method) well_key_columns() (in module spacr.qt.widgets.outlier_model) well_keys() (in module spacr.qt.widgets.measurement_scan_panel) well_label() (in module spacr.well_spec) well_labels() (in module spacr.gene_measurement_compare) well_matrices() (in module spacr.figures.plates) well_position() (in module spacr.omero) well_sequence() (in module spacr.convert) well_side() (in module spacr.qt.widgets.plate_map_picker) well_summary_pairs() (in module spacr.omero) well_tab_label() (in module spacr.qt.widgets.cell_montage_view) well_tabs() (spacr.qt.widgets.cell_montage_view.CellMontageView method) well_to_row_and_column() (in module spacr.dependent_join) well_value() (spacr.qt.screens.plate_view.PlateGridWidget method) WellFractions (class in spacr.sequencing_qc) WellLayout (class in spacr.ops_layout) WellParseError WellPosition (class in spacr.omero) wells_available (spacr.qt.widgets.plate_layout.PlateDesign property) wells_for_coefficient() (in module spacr.cell_montage) wells_grid() (in module spacr.qt.widgets.power_design) wells_of() (in module spacr.gene_measurement_compare) (in module spacr.well_scope) wells_of_plans() (in module spacr.qt.widgets.annotation_strategy_panel) wells_on_offer() (spacr.qt.widgets.measurement_compare_dialog.MeasurementComparePanel method) wells_requested (spacr.qt.widgets.plate_layout.PlateDesign property) WellSelection (class in spacr.cell_montage) WellSpecError what_is_available() (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) what_it_turns_down() (in module spacr.qt.laptop_mode) what_to_drop() (in module spacr.qt.memory_budget) wheelEvent() (spacr.qt.app.MainWindow method) (spacr.qt.layer_viewer.LayerCanvas method) (spacr.qt.ortho_view.OrthoView method) (spacr.qt.widgets.umap_search_viewer.UmapEmbeddingView method) (spacr.qt.widgets.workflow_diagram.WorkflowView method) (spacr.qt.widgets.zoom_view.ZoomableImageView method) where() (spacr.qt.widgets.control_chart.Violation method) where_clause() (spacr.qt.screens.db_browser.DbBrowserScreen method) why() (spacr.settings_advisor.Advice method) why_not() (in module spacr.graph_types) (in module spacr.picture_settings) (spacr.cell_montage.RouteRequirements method) why_nothing_to_scan() (spacr.qt.widgets.measurement_scan_panel.MeasurementScanPanel method) wide_to_long_regression_data() (in module spacr.regression_layout) widget_qss_names() (in module spacr.qt.theme) width (spacr.align.Tile property) (spacr.layers.Canvas property) (spacr.plaque.Well property) (spacr.plaque_papers.Region property) Window (class in spacr.ops_compose) window_backdrop() (spacr.qt.app.MainWindow method) window_end (spacr.barcode_search.OrientationFinding property) window_floor() (in module spacr.qt.dialogs) window_stylesheet() (in module spacr.qt.theme) WindowObject (class in spacr.ops_objects) windows_over() (in module spacr.ops_compose) wire_add_current() (spacr.qt.screens.queue.QueueScreen method) with_() (spacr.crops.CropSpec method) with_aggs() (spacr.qt.widgets.pivot_spec.PivotSpec method) with_baseline() (spacr.qt.widgets.control_chart.ControlChartSpec method) with_channel() (spacr.qt.widgets.graph_spec.GraphSpec method) (spacr.qt.widgets.trellis_spec.TrellisSpec method) with_ci_method() (spacr.qt.widgets.dose_response.DoseResponseSpec method) with_cols() (spacr.qt.widgets.pivot_spec.PivotSpec method) with_column_maps() (spacr.foreign.ImportPlan method) with_columns() (spacr.qt.widgets.control_chart.ControlChartSpec method) (spacr.qt.widgets.dose_response.DoseResponseSpec method) with_components() (spacr.qt.widgets.pca_model.PCASpec method) with_control() (spacr.qt.widgets.control_chart.ControlChartSpec method) with_estimator() (spacr.qt.widgets.control_chart.ControlChartSpec method) with_features() (spacr.qt.widgets.feature_rank.ExplorerSpec method) (spacr.qt.widgets.outlier_model.OutlierSpec method) (spacr.qt.widgets.pca_model.PCASpec method) with_graph() (spacr.qt.widgets.trellis_spec.TrellisSpec method) with_handle() (spacr.qt.widgets.gate_spec.BoxGate method) (spacr.qt.widgets.gate_spec.EllipseGate method) (spacr.qt.widgets.gate_spec.Gate method) (spacr.qt.widgets.gate_spec.PolygonGate method) (spacr.qt.widgets.gate_spec.RectGate method) (spacr.qt.widgets.gate_spec.ThresholdGate method) with_kind() (spacr.qt.widgets.graph_spec.GraphSpec method) (spacr.qt.widgets.trellis_spec.TrellisSpec method)

with_label() (spacr.qt.widgets.feature_rank.ExplorerSpec method) with_mapping() (spacr.image_import.ImportPlan method) with_method() (spacr.qt.widgets.outlier_model.OutlierSpec method) with_nan_policy() (spacr.qt.widgets.pca_model.PCASpec method) with_object() (spacr.schema.FieldID method) with_object_type() (in module spacr.selection) with_parent() (spacr.qt.widgets.gate_spec.Gate method) with_role() (spacr.qt.widgets.graph_spec.GraphSpec method) with_rows() (spacr.qt.widgets.pivot_spec.PivotSpec method) with_rules() (spacr.qt.widgets.control_chart.ControlChartSpec method) with_scales() (spacr.qt.widgets.trellis_spec.TrellisSpec method) with_scaling() (spacr.qt.widgets.pca_model.PCASpec method) with_statistic() (spacr.qt.widgets.feature_rank.ExplorerSpec method) with_statistics() (in module spacr.gene_measurement_compare) with_threshold() (spacr.qt.widgets.gate_spec.BoxGate method) (spacr.qt.widgets.gate_spec.CylinderGate method) (spacr.qt.widgets.gate_spec.Gate method) (spacr.qt.widgets.gate_spec.PrismGate method) (spacr.qt.widgets.gate_spec.RectGate method) (spacr.qt.widgets.gate_spec.ThresholdGate method) with_transform() (spacr.qt.widgets.outlier_model.OutlierSpec method) with_unit() (spacr.qt.widgets.dose_response.DoseResponseSpec method) with_values() (spacr.qt.widgets.pivot_spec.PivotSpec method) (spacr.qt.widgets.power_design.DesignSpec method) with_vertex() (spacr.qt.widgets.gate_spec.PolygonGate method) with_well_keys() (spacr.qt.widgets.outlier_model.OutlierSpec method) with_wrap() (spacr.qt.widgets.trellis_spec.TrellisSpec method) withdrawn_setting_reason() (in module spacr.object_roles) within_noise() (spacr.hyperparam.SearchResult method) Word (class in spacr.plaque_papers) word (spacr.regression_qc.PanelVerdict property) work_rss_bytes (spacr.benchmark.Measurement property) worker_capacity() (in module spacr.qt.bridge) worker_delivery_status() (in module spacr.illumination) (in module spacr.roi) workflow() (in module spacr.qt.organisms) workflow_map() (in module spacr.qt.widgets.workflow_diagram) WorkflowStep (class in spacr.qt.widgets.measurement_scan_panel) WorkflowSteps (class in spacr.qt.widgets.measurement_scan_panel) WorkflowView (class in spacr.qt.widgets.workflow_diagram) workspace_state() (spacr.qt.screens.app_screen.AppScreen method) (spacr.qt.widgets.cell_montage_view.CellMontageView method) (spacr.qt.widgets.database_set.DatabaseSetWidget method) (spacr.qt.widgets.figure_grid_view.FigureGridView method) (spacr.qt.widgets.regression_results.RegressionResultsPanel method) world (spacr.layers.PointsLayer property) world_at() (spacr.layers.Canvas method) world_extent() (spacr.layers.ImageLayer method) (spacr.layers.LabelsLayer method) (spacr.layers.Layer method) (spacr.layers.LayerStack method) (spacr.layers.PointsLayer method) (spacr.layers.ShapesLayer method) world_map() (spacr.layers.Spacing method) worse_than() (spacr.regression_qc.PanelVerdict method) worst() (spacr.run_compare.CountDiff method) worst_verdict() (in module spacr.qt.widgets.qc_summary) (in module spacr.regression_qc) wrap_error_for_prompt() (in module spacr.qt.ai.prompts) wrap_positions() (in module spacr.qt.widgets.trellis_spec) writable() (spacr.io.LazyCropPNG method) WritableDb (class in spacr.qt.screens.db_browser) write() (in module spacr.attribution_columns) (in module spacr.style_base) (spacr.curation.CurationLog method) (spacr.macro.Macro method) (spacr.qt.counting_tool.CountingPanel method) (spacr.qt.widgets.gate_console.GateConsole method) (spacr.regression_annotation.AnnotationResult method) write_annotation_overrides() (in module spacr.plaque_papers) write_back() (in module spacr.napari_bridge) write_beside() (spacr.curation.CurationLog method) write_box_jitter_package() (in module spacr.regression_panels) write_contribution() (in module spacr.qt.widgets.model_share) write_crash_report() (in module spacr.crashreport) write_crop_folder_marker() (in module spacr.crops) write_csv() (spacr.hits.HitList method) write_database() (in module spacr.tabular) write_design() (in module spacr.qt.widgets.plate_layout) write_diagnostic_suite() (in module spacr.regression_diagnostics) write_effects_grid() (in module spacr.cell_montage) write_evaluation_bundle() (in module spacr.classifier_evaluation) write_failure_report() (in module spacr.regression_failure) write_field_table_project() (in module spacr.measure) write_figure() (in module spacr.figures.scene) write_filename_map() (spacr.qt.widgets.metadata_table.MetadataTablePanel method) write_filters_table() (in module spacr.filters) write_hit_attribution() (in module spacr.hit_attribution) write_hit_report() (in module spacr.sp_stats) write_html() (in module spacr.report) (spacr.hits.HitList method) write_image_rgb() (in module spacr.image_colors) write_infection_report() (in module spacr.infection) write_json() (in module spacr.qt.timing) write_layout_csv() (in module spacr.plate_qc) write_leakage_audit() (in module spacr.classifier_evaluation) write_legend() (in module spacr.qt.widgets.plaque_preview) write_map() (in module spacr.convert) write_merged_frame() (in module spacr.qt.widgets.measurement_scan_panel) write_model_card() (in module spacr.deep_spacr) write_ome_zarr() (in module spacr.ome_zarr) write_panel_package() (in module spacr.regression_panels) write_panels() (in module spacr.figures.fast_render) write_pdf() (in module spacr.report) write_permutation_qc() (in module spacr.permutation_qc) write_plot() (in module spacr.ml) write_png_list() (in module spacr.annotation_dataset) write_profile() (in module spacr.install_profile) write_recrop() (in module spacr.qt.mask_engine) write_relationships() (in module spacr.filters) write_report() (in module spacr.batch_correction) (in module spacr.qt.timing) write_run_summary() (in module spacr.regression_summary) write_scorecard() (in module spacr.seg_qc) write_scores_into_the_databases() (spacr.qt.widgets.cell_montage_view.CellMontageView method) write_setting_value() (in module spacr.qt.screens.measure_inputs) write_stack() (in module spacr.align) (spacr.qt.screens.align.AlignScreen method) write_status() (in module spacr.curation_queue) write_suggestions() (in module spacr.suggest) write_surrogate_result() (in module spacr.surrogate) write_table() (in module spacr.ops_store) (in module spacr.tabular) write_through() (spacr.qt.widgets.object_grid_binding.ObjectGridBinding method) write_tiff() (in module spacr.tiff_io) write_umap_annotations() (in module spacr.umap_annotations) write_wav() (in module spacr.qt.sound_synth) written (spacr.qt.screens.report.ReportScreen property) written_path (spacr.qt.widgets.metadata_table.MetadataTableDialog property)

X

x (spacr.qt.widgets.trellis_spec.TrellisSpec property)

x_positions() (spacr.qt.widgets.graph_spec.Scales method) xgboost_available() (in module spacr.regression_annotation)

Y

y (spacr.qt.widgets.trellis_spec.TrellisSpec property) y_positions() (spacr.qt.widgets.graph_spec.Scales method) y_split() (spacr.qt.widgets.fast_plots.FastPlot method)

y_split_reason() (spacr.qt.widgets.fast_plots.FastPlot method) YEAST_LABELS (in module spacr.qt.widgets.organism_diagram) yolo_lines() (in module spacr.qt.widgets.model_share)

Z

z_count (spacr.qt.widgets.preview_controls.ImageSet property) z_handling() (spacr.qt.screens.convert.ConvertScreen method) z_mode (spacr.zstack.TStackResult property) ZarrExtraMissing ZAxisNotPresentError zero_wells (spacr.cell_montage.MontagePlan property) zone() (spacr.qt.widgets.control_chart.ControlChartResult method) (spacr.qt.widgets.graph_builder.GraphBuilderPanel method) (spacr.qt.widgets.trellis_view.TrellisPanelWidget method) zoom() (spacr.layers.CanvasLink method) (spacr.qt.widgets.workflow_diagram.WorkflowView method) zoom_at_pointer() (in module spacr.qt.widgets.cursor_zoom) zoom_by() (spacr.qt.widgets.zoom_view.ZoomableImageView method)

zoom_factor() (spacr.qt.widgets.zoom_view.ZoomableImageView method) zoom_frames() (in module spacr.qt.widgets.animation_zoom) zoom_in() (spacr.qt.ortho_view.OrthoView method) zoom_out() (spacr.qt.ortho_view.OrthoView method) ZoomableImageView (class in spacr.qt.widgets.zoom_view) zoomed() (spacr.layers.Canvas method) (spacr.layers.OrthoViews method) zoomed_animation() (in module spacr.qt.widgets.animation_zoom) ZoomedAnimation (class in spacr.qt.widgets.animation_zoom) zprime_chart() (in module spacr.qt.widgets.control_chart) zprime_frame() (in module spacr.qt.widgets.control_chart) ZStackError ZStackResult (class in spacr.zstack) ZStackSpec (class in spacr.zstack)