Index _ | A | B | C | D | E | F | G | H | I | L | M | N | O | P | R | S | T | U | V | W | X | Y _ __contains__() (bp_analysis.feature.FeatureSequence method) (bp_analysis.feature.TrackedImage method) (bp_analysis.link_features.TrackedImageSet method) (bp_analysis.tree_plot.Tree method) __getitem__() (bp_analysis.feature.FeatureSequence method) (bp_analysis.feature.TrackedImage method) (bp_analysis.link_features.TrackedImageSet method) (bp_analysis.tree_plot.Tree method) __len__() (bp_analysis.feature.FeatureSequence method) (bp_analysis.tree_plot.Tree method) __repr__() (bp_analysis.feature.Feature method) (bp_analysis.feature.FeatureSequence method) (bp_analysis.feature.TrackedImage method) (bp_analysis.link_features.TrackedImageSet method) (bp_analysis.status.EventFlag method) (bp_analysis.status.Flag method) (bp_analysis.status.SequenceFlag method) __str__() (bp_analysis.status.EventFlag method) (bp_analysis.status.Flag method) (bp_analysis.status.SequenceFlag method) __version__ (in module bp_analysis) A ABSORBED (bp_analysis.status.EventFlag attribute) absorbs (bp_analysis.feature.FeatureSequence attribute) add() (bp_analysis.power_spectrum.PowerSpectralyzer method) add_child() (bp_analysis.tree_plot.Node method) (bp_analysis.tree_plot.Tree method) add_features() (bp_analysis.feature.FeatureSequence method) (bp_analysis.feature.TrackedImage method) add_features_from_map() (bp_analysis.feature.TrackedImage method) add_node() (bp_analysis.tree_plot.Tree method) add_parent() (bp_analysis.tree_plot.Node method) (bp_analysis.tree_plot.Tree method) add_relatives() (in module bp_analysis.family_trees) add_sequences() (bp_analysis.link_features.TrackedImageSet method) artist (bp_analysis.feature_plotting.FeatureClickManager attribute) ax (bp_analysis.feature_plotting.FeatureClickManager attribute) B bottom (bp_analysis.feature.Feature property) bp_analysis module bp_analysis.abc_tracker module bp_analysis.config_utils module bp_analysis.db_analysis module bp_analysis.family_trees module bp_analysis.feature module bp_analysis.feature_plotting module bp_analysis.link_features module bp_analysis.power_spectrum module bp_analysis.status module bp_analysis.tracking_utils module bp_analysis.tree_plot module brightest_pixel (bp_analysis.feature.Feature property) C calc_B() (in module bp_analysis.db_analysis) calc_centroid() (in module bp_analysis.db_analysis) calc_centroid_velocities() (in module bp_analysis.db_analysis) calc_intensities() (in module bp_analysis.db_analysis) calc_laplacian() (in module bp_analysis.abc_tracker) calc_sizes() (in module bp_analysis.db_analysis) calc_vel() (in module bp_analysis.db_analysis) children (bp_analysis.tree_plot.Node attribute) cid (bp_analysis.feature_plotting.FeatureClickManager attribute) CLOSE_NEIGHBOR (bp_analysis.status.Flag attribute) color (bp_analysis.feature_plotting.FeatureClickManager attribute) COLORS (in module bp_analysis.feature_plotting) COMPLEX (bp_analysis.status.EventFlag attribute) config (bp_analysis.feature.TrackedImage attribute) connect() (bp_analysis.feature_plotting.FeatureClickManager method) coord_set (bp_analysis.feature.Feature property) coords (bp_analysis.feature_plotting.FeatureClickManager attribute) create_child() (bp_analysis.tree_plot.Node method) (bp_analysis.tree_plot.Tree method) create_parent() (bp_analysis.tree_plot.Node method) (bp_analysis.tree_plot.Tree method) cutout (bp_analysis.feature.Feature attribute) cutout_corner (bp_analysis.feature.Feature attribute) D data_cutout (bp_analysis.feature.Feature attribute) data_cutout_map() (bp_analysis.feature.TrackedImage method) db (in module bp_analysis.family_trees) describe() (in module bp_analysis.family_trees) diff_configs() (in module bp_analysis.config_utils) dilate() (in module bp_analysis.abc_tracker) dilate_contour() (in module bp_analysis.abc_tracker) dilate_laplacian() (in module bp_analysis.abc_tracker) disconnect() (bp_analysis.feature_plotting.FeatureClickManager method) downsample() (bp_analysis.power_spectrum.PowerSpectralyzer method) dt (bp_analysis.power_spectrum.PowerSpectralyzer attribute) E EDGE (bp_analysis.status.Flag attribute) endpoint (bp_analysis.tree_plot.Node attribute) Event (class in bp_analysis.link_features) EventFlag (class in bp_analysis.status) F FALSE_POS (bp_analysis.status.Flag attribute) fate (bp_analysis.feature.FeatureSequence attribute) fate_event_id (bp_analysis.feature.FeatureSequence attribute) fate_sequences (bp_analysis.feature.FeatureSequence attribute) Feature (class in bp_analysis.feature) feature_class (bp_analysis.feature.Feature attribute) feature_flag (bp_analysis.feature.FeatureSequence attribute) feature_map() (bp_analysis.feature.TrackedImage method) FeatureClickManager (class in bp_analysis.feature_plotting) FeaturePlottingMixin (class in bp_analysis.feature_plotting) features (bp_analysis.feature.FeatureSequence attribute) (bp_analysis.feature.TrackedImage attribute) FeatureSequence (class in bp_analysis.feature) files (in module bp_analysis.power_spectrum) fill_with_defaults() (in module bp_analysis.config_utils) filter_close_neighbors() (in module bp_analysis.abc_tracker) filter_size() (in module bp_analysis.abc_tracker) filtered() (bp_analysis.link_features.SequenceList method) find_correlations() (in module bp_analysis.db_analysis) find_rec_by_coord() (in module bp_analysis.db_analysis) find_seeds() (in module bp_analysis.abc_tracker) FIRST_IMAGE (bp_analysis.status.EventFlag attribute) flag (bp_analysis.feature.Feature attribute) (bp_analysis.feature.FeatureSequence attribute) Flag (class in bp_analysis.status) fully_process_one_image() (in module bp_analysis.abc_tracker) G gen_coord_map() (in module bp_analysis.tracking_utils) gen_kernel() (in module bp_analysis.tracking_utils) generate_spectrum() (bp_analysis.power_spectrum.PowerSpectralyzer method) get_cfg() (in module bp_analysis.config_utils) get_n_rounds_dilation() (in module bp_analysis.abc_tracker) get_node() (bp_analysis.tree_plot.Tree method) get_root() (bp_analysis.tree_plot.Tree method) GOOD (bp_analysis.status.Flag attribute) (bp_analysis.status.SequenceFlag attribute) H handle_new_node() (in module bp_analysis.family_trees) I id (bp_analysis.feature.Feature attribute) (bp_analysis.feature.FeatureSequence attribute) (bp_analysis.link_features.Event attribute) (bp_analysis.tree_plot.Node attribute) id_files() (in module bp_analysis.abc_tracker) id_image_first_half() (in module bp_analysis.abc_tracker) id_image_second_half() (in module bp_analysis.abc_tracker) ids (in module bp_analysis.family_trees) image (bp_analysis.feature.Feature attribute) indices (bp_analysis.feature.Feature property) inputs (bp_analysis.link_features.Event attribute) is_good (bp_analysis.feature.Feature property) L LAST_IMAGE (bp_analysis.status.EventFlag attribute) left (bp_analysis.feature.Feature property) lifetime_trends() (in module bp_analysis.db_analysis) line_artist (bp_analysis.feature_plotting.FeatureClickManager attribute) link_features() (in module bp_analysis.link_features) load_data() (in module bp_analysis.db_analysis) load_data_reduced() (in module bp_analysis.db_analysis) load_file() (in module bp_analysis.abc_tracker) M MERGE (bp_analysis.status.EventFlag attribute) merge_features() (bp_analysis.feature.TrackedImage method) module bp_analysis bp_analysis.abc_tracker bp_analysis.config_utils bp_analysis.db_analysis bp_analysis.family_trees bp_analysis.feature bp_analysis.feature_plotting bp_analysis.link_features bp_analysis.power_spectrum bp_analysis.status bp_analysis.tracking_utils bp_analysis.tree_plot N new_autocorr (bp_analysis.power_spectrum.PowerSpectralyzer attribute) Node (class in bp_analysis.tree_plot) nodes (bp_analysis.tree_plot.Tree attribute) NORMAL (bp_analysis.status.EventFlag attribute) O onclick() (bp_analysis.feature_plotting.FeatureClickManager method) origin (bp_analysis.feature.FeatureSequence attribute) origin_event_id (bp_analysis.feature.FeatureSequence attribute) origin_sequences (bp_analysis.feature.FeatureSequence attribute) outline_BP() (in module bp_analysis.feature_plotting) outline_color (bp_analysis.feature_plotting.FeatureClickManager attribute) outputs (bp_analysis.link_features.Event attribute) overlaps() (bp_analysis.feature.Feature method) overlay_chitta() (bp_analysis.power_spectrum.PowerSpectralyzer method) overlay_cranmer() (bp_analysis.power_spectrum.PowerSpectralyzer method) P parents (bp_analysis.tree_plot.Node attribute) pb (in module bp_analysis.family_trees) plot() (bp_analysis.feature_plotting.FeaturePlottingMixin method) (bp_analysis.power_spectrum.PowerSpectralyzer method) plot_bounds (bp_analysis.feature.TrackedImage attribute) plot_features() (bp_analysis.feature.TrackedImage method) plot_features_onto() (bp_analysis.feature.TrackedImage method) plot_node() (in module bp_analysis.tree_plot) plot_onto() (bp_analysis.feature_plotting.FeaturePlottingMixin method) plot_period (bp_analysis.power_spectrum.PowerSpectralyzer attribute) plot_tree() (in module bp_analysis.tree_plot) power_spectrum() (in module bp_analysis.db_analysis) PowerSpectralyzer (class in bp_analysis.power_spectrum) R record (in module bp_analysis.family_trees) records_are_equal() (in module bp_analysis.db_analysis) reference_config (in module bp_analysis.config_utils) reference_file (in module bp_analysis.config_utils) RELEASED (bp_analysis.status.EventFlag attribute) releases (bp_analysis.feature.FeatureSequence attribute) remove_edge_touchers() (in module bp_analysis.abc_tracker) remove_false_positives() (in module bp_analysis.abc_tracker) remove_feature() (bp_analysis.feature.FeatureSequence method) remove_overlapping_false_pos() (in module bp_analysis.abc_tracker) right (bp_analysis.feature.Feature property) root (bp_analysis.tree_plot.Tree attribute) S scan_directory_for_data() (in module bp_analysis.abc_tracker) seed_cutout (bp_analysis.feature.Feature attribute) seed_map() (bp_analysis.feature.TrackedImage method) sequence (bp_analysis.feature.Feature attribute) SequenceFlag (class in bp_analysis.status) SequenceList (class in bp_analysis.link_features) sequences (bp_analysis.link_features.TrackedImageSet attribute) set_bounds() (bp_analysis.power_spectrum.PowerSpectralyzer method) set_dt() (bp_analysis.power_spectrum.PowerSpectralyzer method) set_endpoint() (bp_analysis.tree_plot.Node method) set_plot_period() (bp_analysis.power_spectrum.PowerSpectralyzer class method) SIMPLE_COLORS (in module bp_analysis.feature_plotting) size (bp_analysis.feature.Feature property) size_analysis() (in module bp_analysis.db_analysis) SIZE_CHANGE_PCT (bp_analysis.status.EventFlag attribute) SIZE_CHANGE_PX (bp_analysis.status.EventFlag attribute) slice (bp_analysis.feature.TrackedImage attribute) sorted_by_length() (bp_analysis.link_features.SequenceList method) source_file (bp_analysis.feature.TrackedImage attribute) source_shape (bp_analysis.feature.TrackedImage attribute) SPLIT (bp_analysis.status.EventFlag attribute) T t_end (bp_analysis.tree_plot.Node attribute) t_start (bp_analysis.tree_plot.Node attribute) tend (bp_analysis.link_features.Event attribute) text (bp_analysis.feature_plotting.FeatureClickManager attribute) text_x (bp_analysis.feature_plotting.FeatureClickManager attribute) text_y (bp_analysis.feature_plotting.FeatureClickManager attribute) time (bp_analysis.feature.Feature attribute) (bp_analysis.feature.TrackedImage attribute) time_series (bp_analysis.power_spectrum.PowerSpectralyzer attribute) to_list() (bp_analysis.tree_plot.Node class method) TOO_BIG (bp_analysis.status.Flag attribute) TOO_LONG (bp_analysis.status.Flag attribute) TOO_SHORT (bp_analysis.status.SequenceFlag attribute) TOO_SMALL (bp_analysis.status.Flag attribute) top (bp_analysis.feature.Feature property) tracked_images (bp_analysis.link_features.TrackedImageSet attribute) TrackedImage (class in bp_analysis.feature) TrackedImageSet (class in bp_analysis.link_features) Tree (class in bp_analysis.tree_plot) tree (in module bp_analysis.tree_plot) tstart (bp_analysis.link_features.Event attribute) type (bp_analysis.link_features.Event attribute) U unsliced_image (bp_analysis.feature.TrackedImage attribute) V velocity_histogram() (bp_analysis.power_spectrum.PowerSpectralyzer method) verify_config() (in module bp_analysis.config_utils) W weights (bp_analysis.power_spectrum.PowerSpectralyzer attribute) X xmax (bp_analysis.power_spectrum.PowerSpectralyzer attribute) xmin (bp_analysis.power_spectrum.PowerSpectralyzer attribute) Y ymax (bp_analysis.power_spectrum.PowerSpectralyzer attribute) ymin (bp_analysis.power_spectrum.PowerSpectralyzer attribute)