Index _ | A | B | C | D | E | F | G | H | I | L | M | N | O | P | Q | R | S | T | U | V | W | Z _ __call__() (locan.visualize.colormap.Colormap method) (locan.visualize.transform.HistogramEqualization method) (locan.visualize.transform.Transform method) A AccumulationClusterCheck (class in locan.analysis.accumulation_analysis) add_drift() (in module locan.simulation.simulate_drift) add_glob() (locan.locan_io.files.Files method) adjust_contrast() (in module locan.visualize.transform) alpha (locan.data.hulls.alpha_shape.AlphaShape property) (locan.data.region.Cuboid property) ALPHA_SHAPE (locan.constants.HullType attribute) alpha_shape (locan.data.hulls.alpha_shape.AlphaShape property) (locan.data.locdata.LocData property) alpha_shape() (locan.data.hulls.alpha_shape.AlphaComplex method) AlphaComplex (class in locan.data.hulls.alpha_shape) alphas() (locan.data.hulls.alpha_shape.AlphaComplex method) AlphaShape (class in locan.data.hulls.alpha_shape) angle (locan.data.region.Ellipse property) (locan.data.region.Rectangle property) apply_correction() (locan.analysis.drift.Drift method) apply_window() (in module locan.visualize.render_mpl.render2d) as_artist() (locan.data.region.AxisOrientedCuboid method) (locan.data.region.Cuboid method) (locan.data.region.Ellipse method) (locan.data.region.EmptyRegion method) (locan.data.region.Interval method) (locan.data.region.MultiPolygon method) (locan.data.region.Polygon method) (locan.data.region.Rectangle method) (locan.data.region.Region1D method) (locan.data.region.Region2D method) (locan.data.region.Region3D method) (locan.data.region.RoiRegion method) ASDF (locan.constants.FileType attribute) AxisOrientedCuboid (class in locan.data.region) AxisOrientedHypercuboid (class in locan.data.region) B beta (locan.data.region.Cuboid property) biased_variance() (in module locan.utils.statistics) bin_centers (locan.data.aggregate.Bins property) bin_edges (locan.data.aggregate.Bins property) bin_range (locan.data.aggregate.Bins property) bin_size (locan.data.aggregate.Bins property) Bins (class in locan.data.aggregate) bins (locan.analysis.localization_property_2d.FitImageResults attribute) BlinkStatistics (class in locan.analysis.blinking) boost_histogram_axes (locan.data.aggregate.Bins property) BOUNDING_BOX (locan.constants.HullType attribute) bounding_box (locan.data.locdata.LocData property) (locan.data.region.AxisOrientedCuboid property) (locan.data.region.AxisOrientedHypercuboid property) (locan.data.region.Cuboid property) (locan.data.region.EmptyRegion property) (locan.data.region.Interval property) (locan.data.region.Region property) (locan.data.region.Region2D property) BoundingBox (class in locan.data.hulls.hull) bounds (locan.data.region.AxisOrientedCuboid property) (locan.data.region.AxisOrientedHypercuboid property) (locan.data.region.Cuboid property) (locan.data.region.EmptyRegion property) (locan.data.region.Interval property) (locan.data.region.Region property) (locan.data.region.Region2D property) buffer() (locan.data.region.AxisOrientedCuboid method) (locan.data.region.AxisOrientedHypercuboid method) (locan.data.region.Cuboid method) (locan.data.region.EmptyRegion method) (locan.data.region.Interval method) (locan.data.region.Region method) (locan.data.region.Region2D method) bunwarp() (in module locan.data.transform.bunwarpj) C CATEGORICAL (locan.visualize.colormap.Colormaps attribute) center (locan.data.region.Ellipse property) centroid (locan.data.locdata.LocData property) (locan.data.region.AxisOrientedCuboid property) (locan.data.region.AxisOrientedHypercuboid property) (locan.data.region.Cuboid property) (locan.data.region.Ellipse property) (locan.data.region.EmptyRegion property) (locan.data.region.Interval property) (locan.data.region.MultiPolygon property) (locan.data.region.Polygon property) (locan.data.region.Rectangle property) (locan.data.region.Region property) channel (locan.constants.PropertyKey attribute) chi_square (locan.constants.PropertyKey attribute) cluster_by_bin() (in module locan.data.cluster.clustering) cluster_dbscan() (in module locan.data.cluster.clustering) cluster_hdbscan() (in module locan.data.cluster.clustering) cluster_label (locan.constants.PropertyKey attribute) Collection (class in locan.data.validation) Colormap (class in locan.visualize.colormap) COLORMAP_DEFAULTS (in module locan.configuration) colormap_registry (in module locan.visualize.colormap) Colormaps (class in locan.visualize.colormap) computation_as_string() (locan.analysis.pipeline.Pipeline method) computation_test() (in module locan.analysis.pipeline) compute() (locan.analysis.accumulation_analysis.AccumulationClusterCheck method) (locan.analysis.blinking.BlinkStatistics method) (locan.analysis.cbc.CoordinateBasedColocalization method) (locan.analysis.convex_hull_expectation.ConvexHullExpectation method) (locan.analysis.convex_hull_expectation.ConvexHullExpectationBatch method) (locan.analysis.drift.Drift method) (locan.analysis.grouped_property_expectation.GroupedPropertyExpectation method) (locan.analysis.localization_precision.LocalizationPrecision method) (locan.analysis.localization_property.LocalizationProperty method) (locan.analysis.localization_property_2d.LocalizationProperty2d method) (locan.analysis.localization_property_correlations.LocalizationPropertyCorrelations method) (locan.analysis.localizations_per_frame.LocalizationsPerFrame method) (locan.analysis.nearest_neighbor.NearestNeighborDistances method) (locan.analysis.pipeline.Pipeline method) (locan.analysis.position_variance_expectation.PositionVarianceExpectation method) (locan.analysis.ripley.RipleysHFunction method) (locan.analysis.ripley.RipleysKFunction method) (locan.analysis.ripley.RipleysLFunction method) (locan.analysis.subpixel_bias.SubpixelBias method) (locan.analysis.uncertainty.LocalizationUncertainty method) compute_convex_hull_region_measure_2d() (in module locan.analysis.convex_hull_expectation) concat() (locan.data.locdata.LocData class method) concatenate() (locan.locan_io.files.Files class method) condition (locan.data.filter.Selector property) connected_components (locan.data.hulls.alpha_shape.AlphaShape property) contains() (locan.data.region.AxisOrientedCuboid method) (locan.data.region.AxisOrientedHypercuboid method) (locan.data.region.Cuboid method) (locan.data.region.Ellipse method) (locan.data.region.EmptyRegion method) (locan.data.region.Interval method) (locan.data.region.MultiPolygon method) (locan.data.region.Polygon method) (locan.data.region.Rectangle method) (locan.data.region.Region method) (locan.data.region.RoiRegion method) CONTINUOUS (locan.visualize.colormap.Colormaps attribute) CONTINUOUS_GRAY (locan.visualize.colormap.Colormaps attribute) CONTINUOUS_GRAY_REVERSE (locan.visualize.colormap.Colormaps attribute) CONTINUOUS_REVERSE (locan.visualize.colormap.Colormaps attribute) convert_property_names() (in module locan.locan_io.locdata.utilities) convert_property_types() (in module locan.locan_io.locdata.utilities) CONVEX_HULL (locan.constants.HullType attribute) convex_hull (locan.data.locdata.LocData property) ConvexHull (class in locan.data.hulls.hull) ConvexHullExpectation (class in locan.analysis.convex_hull_expectation) ConvexHullExpectationBatch (class in locan.analysis.convex_hull_expectation) ConvexHullExpectationResults (class in locan.analysis.convex_hull_expectation) ConvexHullExpectationValues (class in locan.analysis.convex_hull_expectation) ConvexHullProperty (class in locan.analysis.convex_hull_expectation) coordinate_keys (locan.data.locdata.LocData property) (locan.data.validation.Collection attribute) coordinate_keys() (locan.constants.PropertyKey class method) coordinate_properties() (locan.constants.PropertyKey class method) CoordinateBasedColocalization (class in locan.analysis.cbc) coordinates (locan.data.locdata.LocData property) corner (locan.data.region.AxisOrientedCuboid property) (locan.data.region.AxisOrientedHypercuboid property) (locan.data.region.Cuboid property) (locan.data.region.Rectangle property) count (locan.analysis.accumulation_analysis.AccumulationClusterCheck attribute) (locan.analysis.blinking.BlinkStatistics attribute) (locan.analysis.cbc.CoordinateBasedColocalization attribute) (locan.analysis.drift.Drift attribute) (locan.analysis.localizations_per_frame.LocalizationsPerFrame attribute) (locan.analysis.nearest_neighbor.NearestNeighborDistances attribute) (locan.analysis.ripley.RipleysHFunction attribute) (locan.analysis.ripley.RipleysKFunction attribute) (locan.analysis.ripley.RipleysLFunction attribute) (locan.analysis.subpixel_bias.SubpixelBias attribute) (locan.analysis.uncertainty.LocalizationUncertainty attribute) (locan.data.locdata.LocData attribute) Cuboid (class in locan.data.region) CUSTOM (locan.constants.FileType attribute) D data (locan.data.locdata.LocData property) (locan.data.validation.Collection attribute) DATASETS_DIR (in module locan.configuration) DECODE (locan.constants.FileType attribute) DECODE_KEYS (in module locan.constants) dependency_info() (in module locan.utils.system_information) description (locan.constants.PropertyDescription attribute) dimension (locan.data.aggregate.Bins property) (locan.data.region.AxisOrientedHypercuboid property) (locan.data.region.EmptyRegion property) (locan.data.region.Region property) (locan.data.region.Region1D property) (locan.data.region.Region2D property) (locan.data.region.Region3D property) distance_to_region() (in module locan.data.properties.misc) distance_to_region_boundary() (in module locan.data.properties.misc) DIVERGING (locan.visualize.colormap.Colormaps attribute) Drift (class in locan.analysis.drift) DriftComponent (class in locan.analysis.drift) DriftModel (class in locan.analysis.drift) dSTORM E eccentricity (locan.data.properties.misc.InertiaMoments attribute) eigenvalues (locan.data.properties.misc.InertiaMoments attribute) eigenvectors (locan.data.properties.misc.InertiaMoments attribute) Ellipse (class in locan.data.region) ELYRA (locan.constants.FileType attribute) ELYRA_KEYS (in module locan.constants) EmptyRegion (class in locan.data.region) EQUALIZE (locan.visualize.transform.Trafo attribute) EQUALIZE_0P3 (locan.visualize.transform.Trafo attribute) EQUALIZE_0P3_ALL (locan.visualize.transform.Trafo attribute) EQUALIZE_0P3_ALL_UINT8 (locan.visualize.transform.Trafo attribute) EQUALIZE_0P3_UINT8 (locan.visualize.transform.Trafo attribute) EQUALIZE_ALL (locan.visualize.transform.Trafo attribute) EQUALIZE_ALL_UINT8 (locan.visualize.transform.Trafo attribute) equalize_bin_size() (locan.data.aggregate.Bins method) EQUALIZE_UINT8 (locan.visualize.transform.Trafo attribute) eval() (locan.analysis.drift.DriftComponent method) (locan.analysis.drift.DriftModel method) exclude() (locan.locan_io.files.Files method) exclude_sparse_points() (in module locan.data.filter) expand_region() (in module locan.data.region_utils) expectation (locan.analysis.convex_hull_expectation.ConvexHullExpectationValues attribute) extent (locan.data.region.AxisOrientedCuboid property) (locan.data.region.AxisOrientedHypercuboid property) (locan.data.region.Cuboid property) (locan.data.region.EmptyRegion property) (locan.data.region.Interval property) (locan.data.region.Region property) (locan.data.region.Region2D property) EXTRAS_REQUIRE (in module locan.dependencies) F file_dialog() (in module locan.gui.io) Files (class in locan.locan_io.files) FileType (class in locan.constants) filter_condition() (in module locan.data.filter) find_file_upstream() (in module locan.locan_io.utilities) fit() (locan.analysis.drift.DriftComponent method) (locan.analysis.drift.DriftModel method) fit_distributions() (locan.analysis.blinking.BlinkStatistics method) (locan.analysis.localization_precision.LocalizationPrecision method) (locan.analysis.localization_property.LocalizationProperty method) (locan.analysis.localizations_per_frame.LocalizationsPerFrame method) (locan.analysis.nearest_neighbor.NearestNeighborDistances method) fit_transformation() (locan.analysis.drift.Drift method) fit_transformations() (locan.analysis.drift.Drift method) FitImageResults (class in locan.analysis.localization_property_2d) frame (locan.constants.PropertyKey attribute) frames_missing (locan.constants.PropertyKey attribute) frames_number (locan.constants.PropertyKey attribute) from_batch() (locan.analysis.convex_hull_expectation.ConvexHullExpectationBatch method) from_chunks() (locan.data.locdata.LocData class method) from_collection() (locan.data.locdata.LocData class method) from_colorcet() (locan.visualize.colormap.Colormap class method) from_coordinates() (locan.data.locdata.LocData class method) from_dataframe() (locan.data.locdata.LocData class method) from_glob() (locan.locan_io.files.Files class method) from_intervals() (locan.data.region.AxisOrientedCuboid class method) (locan.data.region.AxisOrientedHypercuboid class method) (locan.data.region.Interval class method) (locan.data.region.Rectangle class method) (locan.data.region.Region static method) from_matplotlib() (locan.visualize.colormap.Colormap class method) from_napari() (locan.visualize.colormap.Colormap class method) from_path() (locan.locan_io.files.Files class method) from_registry() (locan.visualize.colormap.Colormap class method) from_selection() (locan.data.locdata.LocData class method) from_shapely() (locan.data.region.EmptyRegion class method) (locan.data.region.MultiPolygon class method) (locan.data.region.Polygon class method) (locan.data.region.Region2D static method) (locan.data.region.RoiRegion class method) from_yaml() (locan.rois.roi.Roi class method) (locan.rois.roi.RoiLegacy_0 class method) G gamma (locan.data.region.Cuboid property) get_alpha_complex_lines() (locan.data.hulls.alpha_shape.AlphaComplex method) get_alpha_complex_triangles() (locan.data.hulls.alpha_shape.AlphaComplex method) get_colormap() (in module locan.visualize.colormap) get_rois() (in module locan.visualize.render_napari.utilities) graph_from_lines() (locan.data.hulls.alpha_shape.AlphaComplex method) graph_from_triangles() (locan.data.hulls.alpha_shape.AlphaComplex method) group_identifiers() (locan.locan_io.files.Files method) grouped (locan.analysis.convex_hull_expectation.ConvexHullExpectationResults attribute) (locan.analysis.grouped_property_expectation.GroupedPropertyExpectationResults attribute) (locan.analysis.position_variance_expectation.PositionVarianceExpectationResults attribute) grouped() (locan.locan_io.files.Files method) GroupedPropertyExpectation (class in locan.analysis.grouped_property_expectation) GroupedPropertyExpectationResults (class in locan.analysis.grouped_property_expectation) H HAS_DEPENDENCY (in module locan.dependencies) height (locan.data.region.AxisOrientedCuboid property) (locan.data.region.Cuboid property) (locan.data.region.Ellipse property) (locan.data.region.Rectangle property) hist() (locan.analysis.blinking.BlinkStatistics method) (locan.analysis.cbc.CoordinateBasedColocalization method) (locan.analysis.convex_hull_expectation.ConvexHullExpectation method) (locan.analysis.convex_hull_expectation.ConvexHullExpectationBatch method) (locan.analysis.grouped_property_expectation.GroupedPropertyExpectation method) (locan.analysis.localization_precision.LocalizationPrecision method) (locan.analysis.localization_property.LocalizationProperty method) (locan.analysis.localizations_per_frame.LocalizationsPerFrame method) (locan.analysis.nearest_neighbor.NearestNeighborDistances method) (locan.analysis.position_variance_expectation.PositionVarianceExpectation method) (locan.analysis.subpixel_bias.SubpixelBias method) histogram() (in module locan.data.aggregate) HistogramEqualization (class in locan.visualize.transform) holes (locan.data.region.MultiPolygon property) (locan.data.region.Polygon property) HullType (class in locan.constants) I image (locan.analysis.localization_property_2d.FitImageResults attribute) IMPORT_NAMES (in module locan.dependencies) index (locan.constants.PropertyKey attribute) inertia_moments (locan.data.locdata.LocData property) inertia_moments() (in module locan.data.properties.misc) InertiaMoments (class in locan.data.properties.misc) INSTALL_REQUIRES (in module locan.dependencies) intensity (locan.constants.PropertyKey attribute) intensity_keys() (locan.constants.PropertyKey class method) intensity_properties() (locan.constants.PropertyKey class method) intersection() (locan.data.region.EmptyRegion method) (locan.data.region.Region method) (locan.data.region.Region1D method) (locan.data.region.Region2D method) (locan.data.region.Region3D method) (locan.data.region.RegionND method) Interval (class in locan.data.region) intervals (locan.data.region.AxisOrientedCuboid property) (locan.data.region.AxisOrientedHypercuboid property) (locan.data.region.Interval property) (locan.data.region.Rectangle property) inverse() (locan.visualize.transform.HistogramEqualization method) (locan.visualize.transform.Transform method) is_array_like() (in module locan.data.aggregate) is_equally_sized (locan.data.aggregate.Bins property) iterate_2d_array() (in module locan.utils.miscellaneous) L label (locan.analysis.localization_property_2d.FitImageResults attribute) labels (locan.data.aggregate.Bins property) length (locan.data.region.AxisOrientedCuboid property) (locan.data.region.Cuboid property) lengths (locan.data.region.AxisOrientedHypercuboid property) link_locdata() (in module locan.data.tracking) load_asdf_file() (in module locan.locan_io.locdata.asdf_io) load_decode_file() (in module locan.locan_io.locdata.decode_io) load_decode_header() (in module locan.locan_io.locdata.decode_io) load_Elyra_file() (in module locan.locan_io.locdata.elyra_io) load_Elyra_header() (in module locan.locan_io.locdata.elyra_io) load_locdata() (in module locan.locan_io.locdata.io_locdata) load_metadata_from_toml() (in module locan.data.metadata_utils) load_Nanoimager_file() (in module locan.locan_io.locdata.nanoimager_io) load_Nanoimager_header() (in module locan.locan_io.locdata.nanoimager_io) load_npc() (in module locan.datasets) load_rapidSTORM_file() (in module locan.locan_io.locdata.rapidstorm_io) load_rapidSTORM_header() (in module locan.locan_io.locdata.rapidstorm_io) load_rapidSTORM_track_file() (in module locan.locan_io.locdata.rapidstorm_io) load_rapidSTORM_track_header() (in module locan.locan_io.locdata.rapidstorm_io) load_SMAP_file() (in module locan.locan_io.locdata.smap_io) load_SMAP_header() (in module locan.locan_io.locdata.smap_io) load_SMLM_file() (in module locan.locan_io.locdata.smlm_io) load_SMLM_header() (in module locan.locan_io.locdata.smlm_io) load_SMLM_manifest() (in module locan.locan_io.locdata.smlm_io) load_thunderstorm_file() (in module locan.locan_io.locdata.thunderstorm_io) load_thunderstorm_header() (in module locan.locan_io.locdata.thunderstorm_io) load_tubulin() (in module locan.datasets) load_txt_file() (in module locan.locan_io.locdata.io_locdata) local_background (locan.constants.PropertyKey attribute) local_background_sigma (locan.constants.PropertyKey attribute) localization_precision_model_1() (in module locan.analysis.uncertainty) localization_precision_model_2() (in module locan.analysis.uncertainty) localization_precision_model_3() (in module locan.analysis.uncertainty) LocalizationPrecision (class in locan.analysis.localization_precision) LocalizationProperty (class in locan.analysis.localization_property) LocalizationProperty2d (class in locan.analysis.localization_property_2d) LocalizationPropertyCorrelations (class in locan.analysis.localization_property_correlations) localizations_in_cluster_regions() (in module locan.data.filter) LocalizationsPerFrame (class in locan.analysis.localizations_per_frame) LocalizationUncertainty (class in locan.analysis.uncertainty) locan module locan.analysis module locan.analysis.accumulation_analysis module locan.analysis.blinking module locan.analysis.cbc module locan.analysis.convex_hull_expectation module locan.analysis.drift module locan.analysis.grouped_property_expectation module locan.analysis.localization_precision module locan.analysis.localization_property module locan.analysis.localization_property_2d module locan.analysis.localization_property_correlations module locan.analysis.localizations_per_frame module locan.analysis.nearest_neighbor module locan.analysis.pipeline module locan.analysis.position_variance_expectation module locan.analysis.ripley module locan.analysis.subpixel_bias module locan.analysis.uncertainty module locan.configuration module locan.constants module locan.data module locan.data.aggregate module locan.data.cluster module locan.data.cluster.clustering module locan.data.cluster.utils module locan.data.filter module locan.data.hulls module locan.data.hulls.alpha_shape module locan.data.hulls.hull module locan.data.locdata module locan.data.metadata_utils module locan.data.properties module locan.data.properties.misc module locan.data.region module locan.data.region_utils module locan.data.register module locan.data.tracking module locan.data.transform module locan.data.transform.bunwarpj module locan.data.transform.intensity_transformation module locan.data.transform.spatial_transformation module locan.data.validation module locan.datasets module locan.dependencies module locan.gui module locan.gui.io module locan.locan_io module locan.locan_io.files module locan.locan_io.locdata module locan.locan_io.locdata.asdf_io module locan.locan_io.locdata.decode_io module locan.locan_io.locdata.elyra_io module locan.locan_io.locdata.io_locdata module locan.locan_io.locdata.nanoimager_io module locan.locan_io.locdata.rapidstorm_io module locan.locan_io.locdata.smap_io module locan.locan_io.locdata.smlm_io module locan.locan_io.locdata.thunderstorm_io module locan.locan_io.locdata.utilities module locan.locan_io.utilities module locan.rois module locan.rois.roi module locan.scripts module locan.scripts.script_check module locan.scripts.script_draw_roi module locan.scripts.script_napari module locan.scripts.script_rois module locan.scripts.script_show_versions module locan.scripts.script_test module locan.simulation module locan.simulation.simulate_drift module locan.simulation.simulate_locdata module locan.tests module locan.utils module locan.utils.miscellaneous module locan.utils.statistics module locan.utils.system_information module locan.visualize module locan.visualize.colormap module locan.visualize.render module locan.visualize.render_mpl module locan.visualize.render_mpl.render2d module locan.visualize.render_mpl.render3d module locan.visualize.render_napari module locan.visualize.render_napari.render2d module locan.visualize.render_napari.render3d module locan.visualize.render_napari.utilities module locan.visualize.transform module LocData (class in locan.data.locdata) locdata() (locan.rois.roi.Roi method) (locan.rois.roi.RoiLegacy_0 method) lower_bound (locan.data.filter.Selector property) (locan.data.region.Interval property) M main() (in module locan.scripts.script_check) (in module locan.scripts.script_draw_roi) (in module locan.scripts.script_napari) (in module locan.scripts.script_rois) (in module locan.scripts.script_show_versions) (in module locan.scripts.script_test) make_cluster() (in module locan.simulation.simulate_locdata) make_dstorm() (in module locan.simulation.simulate_locdata) make_Matern() (in module locan.simulation.simulate_locdata) make_NeymanScott() (in module locan.simulation.simulate_locdata) make_Poisson() (in module locan.simulation.simulate_locdata) make_Thomas() (in module locan.simulation.simulate_locdata) make_uniform() (in module locan.simulation.simulate_locdata) manifest_file_info_from_locdata() (in module locan.locan_io.locdata.smlm_io) manifest_format_from_locdata() (in module locan.locan_io.locdata.smlm_io) manifest_from_locdata() (in module locan.locan_io.locdata.smlm_io) match_file_upstream() (locan.locan_io.files.Files method) match_files() (locan.locan_io.files.Files method) matplotlib (locan.visualize.colormap.Colormap property) matrix (locan.data.register.Transformation attribute) max_distance (locan.data.region.AxisOrientedCuboid property) (locan.data.region.AxisOrientedHypercuboid property) (locan.data.region.Cuboid property) (locan.data.region.Ellipse property) (locan.data.region.EmptyRegion property) (locan.data.region.Interval property) (locan.data.region.MultiPolygon property) (locan.data.region.Polygon property) (locan.data.region.Rectangle property) (locan.data.region.Region property) max_distance() (in module locan.data.properties.misc) merge_metadata() (in module locan.data.metadata_utils) message_scheme() (in module locan.data.metadata_utils) metadata_from_toml_string() (in module locan.data.metadata_utils) metadata_to_formatted_string() (in module locan.data.metadata_utils) model_result (locan.analysis.localization_property_2d.FitImageResults attribute) module locan locan.analysis locan.analysis.accumulation_analysis locan.analysis.blinking locan.analysis.cbc locan.analysis.convex_hull_expectation locan.analysis.drift locan.analysis.grouped_property_expectation locan.analysis.localization_precision locan.analysis.localization_property locan.analysis.localization_property_2d locan.analysis.localization_property_correlations locan.analysis.localizations_per_frame locan.analysis.nearest_neighbor locan.analysis.pipeline locan.analysis.position_variance_expectation locan.analysis.ripley locan.analysis.subpixel_bias locan.analysis.uncertainty locan.configuration locan.constants locan.data locan.data.aggregate locan.data.cluster locan.data.cluster.clustering locan.data.cluster.utils locan.data.filter locan.data.hulls locan.data.hulls.alpha_shape locan.data.hulls.hull locan.data.locdata locan.data.metadata_utils locan.data.properties locan.data.properties.misc locan.data.region locan.data.region_utils locan.data.register locan.data.tracking locan.data.transform locan.data.transform.bunwarpj locan.data.transform.intensity_transformation locan.data.transform.spatial_transformation locan.data.validation locan.datasets locan.dependencies locan.gui locan.gui.io locan.locan_io locan.locan_io.files locan.locan_io.locdata locan.locan_io.locdata.asdf_io locan.locan_io.locdata.decode_io locan.locan_io.locdata.elyra_io locan.locan_io.locdata.io_locdata locan.locan_io.locdata.nanoimager_io locan.locan_io.locdata.rapidstorm_io locan.locan_io.locdata.smap_io locan.locan_io.locdata.smlm_io locan.locan_io.locdata.thunderstorm_io locan.locan_io.locdata.utilities locan.locan_io.utilities locan.rois locan.rois.roi locan.scripts locan.scripts.script_check locan.scripts.script_draw_roi locan.scripts.script_napari locan.scripts.script_rois locan.scripts.script_show_versions locan.scripts.script_test locan.simulation locan.simulation.simulate_drift locan.simulation.simulate_locdata locan.tests locan.utils locan.utils.miscellaneous locan.utils.statistics locan.utils.system_information locan.visualize locan.visualize.colormap locan.visualize.render locan.visualize.render_mpl locan.visualize.render_mpl.render2d locan.visualize.render_mpl.render3d locan.visualize.render_napari locan.visualize.render_napari.render2d locan.visualize.render_napari.render3d locan.visualize.render_napari.utilities locan.visualize.transform MPL (locan.constants.RenderEngine attribute) MPL_SCATTER_DENSITY (locan.constants.RenderEngine attribute) MultiPolygon (class in locan.data.region) N n_bins (locan.data.aggregate.Bins property) N_JOBS (in module locan.configuration) n_points (locan.analysis.convex_hull_expectation.ConvexHullExpectationValues attribute) name (locan.constants.PropertyDescription attribute) (locan.visualize.colormap.Colormap property) NANOIMAGER (locan.constants.FileType attribute) NANOIMAGER_KEYS (in module locan.constants) NAPARI (locan.constants.RenderEngine attribute) napari (locan.visualize.colormap.Colormap property) NearestNeighborDistances (class in locan.analysis.nearest_neighbor) needs_package() (in module locan.dependencies) NNDistances_csr_2d (class in locan.analysis.nearest_neighbor) NNDistances_csr_3d (class in locan.analysis.nearest_neighbor) NONE (locan.dependencies.QtBindings attribute) (locan.visualize.transform.Trafo attribute) O offset (locan.data.register.Transformation attribute) open_path_or_file_like() (in module locan.locan_io.locdata.utilities) optimal_alpha() (locan.data.hulls.alpha_shape.AlphaComplex method) orientation (locan.data.properties.misc.InertiaMoments attribute) ORIENTED_BOUNDING_BOX (locan.constants.HullType attribute) oriented_bounding_box (locan.data.locdata.LocData property) OrientedBoundingBox (class in locan.data.hulls.hull) original_index (locan.constants.PropertyKey attribute) overlay() (in module locan.data.transform.spatial_transformation) P PairwiseDistance1d (class in locan.analysis.localization_precision) PairwiseDistance1dIdenticalSigmaZeroMu (class in locan.analysis.localization_precision) PairwiseDistance2d (class in locan.analysis.localization_precision) PairwiseDistance2dIdenticalSigma (class in locan.analysis.localization_precision) PairwiseDistance2dIdenticalSigmaZeroMu (class in locan.analysis.localization_precision) PairwiseDistance3d (class in locan.analysis.localization_precision) PairwiseDistance3dIdenticalSigmaZeroMu (class in locan.analysis.localization_precision) PALM pdf_nnDistances_csr_2D() (in module locan.analysis.nearest_neighbor) pdf_nnDistances_csr_3D() (in module locan.analysis.nearest_neighbor) Pipeline (class in locan.analysis.pipeline) plane (locan.constants.PropertyKey attribute) plot() (in module locan.analysis.ripley) (locan.analysis.accumulation_analysis.AccumulationClusterCheck method) (locan.analysis.convex_hull_expectation.ConvexHullExpectation method) (locan.analysis.convex_hull_expectation.ConvexHullExpectationBatch method) (locan.analysis.drift.Drift method) (locan.analysis.drift.DriftModel method) (locan.analysis.grouped_property_expectation.GroupedPropertyExpectation method) (locan.analysis.localization_precision.LocalizationPrecision method) (locan.analysis.localization_property.LocalizationProperty method) (locan.analysis.localization_property_2d.LocalizationProperty2d method) (locan.analysis.localization_property_correlations.LocalizationPropertyCorrelations method) (locan.analysis.localizations_per_frame.LocalizationsPerFrame method) (locan.analysis.position_variance_expectation.PositionVarianceExpectation method) (locan.analysis.ripley.RipleysHFunction method) (locan.analysis.ripley.RipleysKFunction method) (locan.analysis.ripley.RipleysLFunction method) (locan.data.region.Region2D method) (locan.data.region.Region3D method) plot_deviation_from_mean() (locan.analysis.localization_property_2d.LocalizationProperty2d method) plot_deviation_from_median() (locan.analysis.localization_property_2d.LocalizationProperty2d method) plot_residuals() (locan.analysis.localization_property_2d.LocalizationProperty2d method) points (locan.data.region.AxisOrientedCuboid property) (locan.data.region.AxisOrientedHypercuboid property) (locan.data.region.Cuboid property) (locan.data.region.Ellipse property) (locan.data.region.EmptyRegion property) (locan.data.region.Interval property) (locan.data.region.MultiPolygon property) (locan.data.region.Polygon property) (locan.data.region.Rectangle property) (locan.data.region.Region property) Polygon (class in locan.data.region) polygons (locan.data.region.MultiPolygon property) position_x (locan.constants.PropertyKey attribute) position_y (locan.constants.PropertyKey attribute) position_z (locan.constants.PropertyKey attribute) PositionVarianceExpectation (class in locan.analysis.position_variance_expectation) PositionVarianceExpectationResults (class in locan.analysis.position_variance_expectation) print_meta() (locan.data.locdata.LocData method) print_summary() (locan.data.locdata.LocData method) (locan.locan_io.files.Files method) projection() (locan.data.locdata.LocData method) PROPERTY_KEYS (in module locan.constants) PropertyDescription (class in locan.constants) PropertyKey (class in locan.constants) psf_amplitude (locan.constants.PropertyKey attribute) psf_half_width (locan.constants.PropertyKey attribute) psf_half_width_x (locan.constants.PropertyKey attribute) psf_half_width_y (locan.constants.PropertyKey attribute) psf_half_width_z (locan.constants.PropertyKey attribute) psf_sigma (locan.constants.PropertyKey attribute) psf_sigma_x (locan.constants.PropertyKey attribute) psf_sigma_y (locan.constants.PropertyKey attribute) psf_sigma_z (locan.constants.PropertyKey attribute) psf_width (locan.constants.PropertyKey attribute) psf_width_x (locan.constants.PropertyKey attribute) psf_width_y (locan.constants.PropertyKey attribute) psf_width_z (locan.constants.PropertyKey attribute) PYQT5 (locan.dependencies.QtBindings attribute) PYQT6 (locan.dependencies.QtBindings attribute) PYSIDE2 (locan.dependencies.QtBindings attribute) PYSIDE6 (locan.dependencies.QtBindings attribute) Q QtBindings (class in locan.dependencies) R random_subset() (in module locan.data.filter) randomize() (in module locan.simulation.simulate_locdata) RAPIDSTORM (locan.constants.FileType attribute) RAPIDSTORM_KEYS (in module locan.constants) RAPIDSTORMTRACK (locan.constants.FileType attribute) rasterize() (in module locan.rois.roi) ratio_fwhm_to_sigma() (in module locan.utils.statistics) Rectangle (class in locan.data.region) reduce() (locan.data.locdata.LocData method) references (locan.data.validation.Collection attribute) Region (class in locan.data.region) region (locan.data.hulls.alpha_shape.AlphaShape property) (locan.data.hulls.hull.BoundingBox property) (locan.data.hulls.hull.OrientedBoundingBox property) (locan.data.locdata.LocData property) (locan.data.region.RoiRegion property) (locan.rois.roi.Roi property) (locan.rois.roi.RoiLegacy_0 property) Region1D (class in locan.data.region) Region2D (class in locan.data.region) Region3D (class in locan.data.region) region_measure (locan.data.region.AxisOrientedCuboid property) (locan.data.region.AxisOrientedHypercuboid property) (locan.data.region.Cuboid property) (locan.data.region.Ellipse property) (locan.data.region.EmptyRegion property) (locan.data.region.Interval property) (locan.data.region.MultiPolygon property) (locan.data.region.Polygon property) (locan.data.region.Rectangle property) (locan.data.region.Region property) REGION_MEASURE_2D (locan.analysis.convex_hull_expectation.ConvexHullProperty attribute) REGION_MEASURE_3D (locan.analysis.convex_hull_expectation.ConvexHullProperty attribute) region_specs (locan.data.region.Ellipse property) (locan.data.region.Interval property) (locan.data.region.MultiPolygon property) (locan.data.region.Polygon property) (locan.data.region.Rectangle property) RegionND (class in locan.data.region) regions_union() (in module locan.data.region_utils) register_cc() (in module locan.data.register) register_icp() (in module locan.data.register) render_2d() (in module locan.visualize.render) render_2d_mpl() (in module locan.visualize.render_mpl.render2d) render_2d_napari() (in module locan.visualize.render_napari.render2d) render_2d_napari_image() (in module locan.visualize.render_napari.render2d) render_2d_rgb_mpl() (in module locan.visualize.render_mpl.render2d) render_2d_rgb_napari() (in module locan.visualize.render_napari.render2d) render_2d_scatter_density() (in module locan.visualize.render_mpl.render2d) render_3d() (in module locan.visualize.render) render_3d_napari() (in module locan.visualize.render_napari.render3d) render_3d_napari_image() (in module locan.visualize.render_napari.render3d) render_3d_rgb_napari() (in module locan.visualize.render_napari.render3d) RENDER_ENGINE (in module locan.configuration) render_locs_per_frame_napari() (in module locan.scripts.script_check) RenderEngine (class in locan.constants) report() (locan.analysis.localization_property_2d.LocalizationProperty2d method) (locan.analysis.localization_property_correlations.LocalizationPropertyCorrelations method) resample() (in module locan.simulation.simulate_locdata) reset() (locan.data.locdata.LocData method) Ripley_h_maximum (locan.analysis.ripley.RipleysHFunction property) RipleysHFunction (class in locan.analysis.ripley) RipleysKFunction (class in locan.analysis.ripley) RipleysLFunction (class in locan.analysis.ripley) Roi (class in locan.rois.roi) RoiLegacy_0 (class in locan.rois.roi) RoiRegion (class in locan.data.region) ROOT_DIR (in module locan.constants) S save_asdf() (in module locan.locan_io.locdata.asdf_io) save_computation() (locan.analysis.pipeline.Pipeline method) save_rois() (in module locan.visualize.render_napari.utilities) save_SMAP_csv() (in module locan.locan_io.locdata.smap_io) save_SMLM() (in module locan.locan_io.locdata.smlm_io) save_thunderstorm_csv() (in module locan.locan_io.locdata.thunderstorm_io) sc_check() (in module locan.scripts.script_check) sc_draw_roi_mpl() (in module locan.scripts.script_draw_roi) sc_draw_roi_napari() (in module locan.scripts.script_rois) sc_napari() (in module locan.scripts.script_napari) scatter_2d_mpl() (in module locan.visualize.render_mpl.render2d) scatter_3d_mpl() (in module locan.visualize.render_mpl.render3d) select_by_condition() (in module locan.data.filter) select_by_drawing_mpl() (in module locan.visualize.render_mpl.render2d) select_by_drawing_napari() (in module locan.visualize.render_napari.utilities) select_by_image_mask() (in module locan.data.filter) select_by_region() (in module locan.data.filter) Selector (class in locan.data.filter) serial_clustering() (in module locan.data.cluster.utils) set_file_path_dialog() (in module locan.gui.io) set_group_identifier() (locan.locan_io.files.Files method) shapely_object (locan.data.region.Ellipse property) (locan.data.region.MultiPolygon property) (locan.data.region.Polygon property) (locan.data.region.Rectangle property) (locan.data.region.Region2D property) show_versions() (in module locan.utils.system_information) signal_background_ratio (locan.constants.PropertyKey attribute) signal_noise_ratio (locan.constants.PropertyKey attribute) simulate_cluster() (in module locan.simulation.simulate_locdata) simulate_dstorm() (in module locan.simulation.simulate_locdata) simulate_frame_numbers() (in module locan.simulation.simulate_locdata) simulate_Matern() (in module locan.simulation.simulate_locdata) simulate_NeymanScott() (in module locan.simulation.simulate_locdata) simulate_Poisson() (in module locan.simulation.simulate_locdata) simulate_Thomas() (in module locan.simulation.simulate_locdata) simulate_tracks() (in module locan.simulation.simulate_locdata) simulate_uniform() (in module locan.simulation.simulate_locdata) slice_z (locan.constants.PropertyKey attribute) SMAP (locan.constants.FileType attribute) SMAP_KEYS (in module locan.constants) SMLM (locan.constants.FileType attribute) SMLM_KEYS (in module locan.constants) STANDARDIZE (locan.visualize.transform.Trafo attribute) standardize() (in module locan.data.transform.spatial_transformation) STANDARDIZE_UINT8 (locan.visualize.transform.Trafo attribute) statistics() (in module locan.data.properties) std_neg (locan.analysis.convex_hull_expectation.ConvexHullExpectationValues attribute) std_pos (locan.analysis.convex_hull_expectation.ConvexHullExpectationValues attribute) SubpixelBias (class in locan.analysis.subpixel_bias) subregion_measure (locan.data.region.AxisOrientedCuboid property) (locan.data.region.AxisOrientedHypercuboid property) (locan.data.region.Cuboid property) (locan.data.region.Ellipse property) (locan.data.region.EmptyRegion property) (locan.data.region.Interval property) (locan.data.region.MultiPolygon property) (locan.data.region.Polygon property) (locan.data.region.Rectangle property) (locan.data.region.Region property) SUBREGION_MEASURE_2D (locan.analysis.convex_hull_expectation.ConvexHullProperty attribute) SUBREGION_MEASURE_3D (locan.analysis.convex_hull_expectation.ConvexHullProperty attribute) summary() (locan.constants.PropertyKey class method) super-resolution microscopy surrounding_region() (in module locan.data.region_utils) symmetric_difference() (locan.data.region.EmptyRegion method) (locan.data.region.Region method) (locan.data.region.Region1D method) (locan.data.region.Region2D method) (locan.data.region.Region3D method) (locan.data.region.RegionND method) system_info() (in module locan.utils.system_information) T test() (in module locan.tests) THUNDERSTORM (locan.constants.FileType attribute) THUNDERSTORM_KEYS (in module locan.constants) time (locan.constants.PropertyKey attribute) to_shapely() (locan.data.region.RoiRegion method) to_yaml() (locan.rois.roi.Roi method) (locan.rois.roi.RoiLegacy_0 method) TQDM_DISABLE (in module locan.configuration) TQDM_LEAVE (in module locan.configuration) track() (in module locan.data.tracking) Trafo (class in locan.visualize.transform) Transform (class in locan.visualize.transform) transform_affine() (in module locan.data.transform.spatial_transformation) transform_counts_to_photons() (in module locan.data.transform.intensity_transformation) Transformation (class in locan.data.register) TURBO (locan.visualize.colormap.Colormaps attribute) two_kernel_improvement (locan.constants.PropertyKey attribute) type (locan.constants.PropertyDescription attribute) U uncertainty (locan.constants.PropertyKey attribute) uncertainty_keys (locan.data.locdata.LocData property) uncertainty_keys() (locan.constants.PropertyKey class method) uncertainty_properties() (locan.constants.PropertyKey class method) uncertainty_x (locan.constants.PropertyKey attribute) uncertainty_y (locan.constants.PropertyKey attribute) uncertainty_z (locan.constants.PropertyKey attribute) union() (locan.data.region.EmptyRegion method) (locan.data.region.Region method) (locan.data.region.Region1D method) (locan.data.region.Region2D method) (locan.data.region.Region3D method) (locan.data.region.RegionND method) unit (locan.constants.PropertyDescription attribute) unit_SI (locan.constants.PropertyDescription attribute) UNKNOWN_FILE_TYPE (locan.constants.FileType attribute) update() (locan.data.locdata.LocData method) update_alpha_shape() (locan.data.locdata.LocData method) update_alpha_shape_in_references() (locan.data.locdata.LocData method) update_convex_hulls_in_references() (locan.data.locdata.LocData method) update_inertia_moments_in_references() (locan.data.locdata.LocData method) update_oriented_bounding_box_in_references() (locan.data.locdata.LocData method) update_properties_in_references() (locan.data.locdata.LocData method) upper_bound (locan.data.filter.Selector property) (locan.data.region.Interval property) V values (locan.analysis.convex_hull_expectation.ConvexHullExpectationResults attribute) (locan.analysis.grouped_property_expectation.GroupedPropertyExpectationResults attribute) (locan.analysis.position_variance_expectation.PositionVarianceExpectationResults attribute) variance_explained (locan.data.properties.misc.InertiaMoments attribute) vertex_alpha_shape_indices (locan.data.hulls.alpha_shape.AlphaShape property) vertex_indices (locan.data.hulls.alpha_shape.AlphaShape property) vertices (locan.data.hulls.alpha_shape.AlphaShape property) (locan.data.hulls.hull.BoundingBox property) (locan.data.hulls.hull.OrientedBoundingBox property) vertices_alpha_shape (locan.data.hulls.alpha_shape.AlphaShape property) vertices_connected_components_indices (locan.data.hulls.alpha_shape.AlphaShape property) W weighted_mean (locan.utils.statistics.WeightedMeanVariance attribute) weighted_mean_variance (locan.utils.statistics.WeightedMeanVariance attribute) weighted_mean_variance() (in module locan.utils.statistics) WeightedMeanVariance (class in locan.utils.statistics) width (locan.data.region.AxisOrientedCuboid property) (locan.data.region.Cuboid property) (locan.data.region.Ellipse property) (locan.data.region.Rectangle property) Z ZERO (locan.visualize.transform.Trafo attribute) ZERO_UINT8 (locan.visualize.transform.Trafo attribute)