Index A | B | C | D | E | F | G | H | I | K | L | M | N | O | P | R | S | T | U | W | X | Y A adopt() (delta.lineage.Lineage method) (delta.pipeline.ROI method) affine_transform() (in module delta.imgops) apply_backend_config() (delta.config.Config method) apply_config() (delta.config.BackendConfig method) area (delta.lineage.CellFeatures attribute) attributions() (in module delta.utils) B BackendConfig (class in delta.config) backends (delta.config.Config attribute) batch_size (delta.config.ModelConfig attribute) binarize_threshold() (in module delta.imgops) box (delta.pipeline.ROI attribute) C Cell (class in delta.lineage) cell_area() (in module delta.utils) cell_fluo() (in module delta.utils) cell_perimeter() (in module delta.utils) cell_width_length() (in module delta.utils) CellAlreadyHasDaughterError CellDoesNotExistError CellDoesNotHaveMotherError CellFeatures (class in delta.lineage) CellNotOnFrameError cells (delta.lineage.Lineage attribute) cells_in_frame() (in module delta.utils) centroid() (in module delta.imgops) channel_names (delta.utils.XPReader attribute) channels (delta.utils.XPReader attribute) chunk_size (delta.config.ModelConfig attribute) chunks_predict() (delta.pipeline.ROI static method) clear() (delta.pipeline.Position method) color_diff() (in module delta.utils) compare() (delta.lineage.Lineage method) (delta.pipeline.Position method) (delta.pipeline.ROI method) compare_arrays() (in module delta.utils) compute_drift() (in module delta.imgops) compute_growthrates() (delta.lineage.Lineage method) (delta.pipeline.Position method) Config (class in delta.config) config (delta.pipeline.Pipeline attribute) (delta.pipeline.Position attribute) (delta.pipeline.ROI attribute) contour_curvature() (in module delta.utils) correct_drift (delta.config.Config attribute) correct_drift() (in module delta.imgops) correct_rotation (delta.config.Config attribute) create() (delta.lineage.Lineage method) create_windows() (in module delta.imgops) crop() (delta.imgops.CroppingBox method) CroppingBox (class in delta.imgops) D data_augmentation() (in module delta.data) daughterid() (delta.lineage.Cell method) default() (delta.config.Config class method) (delta.config.ModelConfig class method) delta module delta.assets module delta.config module delta.data module delta.imgops module delta.lineage module delta.model module delta.pipeline module delta.utils module deserialize() (delta.config.Config class method) deskew() (in module delta.imgops) detect_touching_cells() (in module delta.imgops) distance_transform_labels() (in module delta.imgops) division_poles() (in module delta.utils) download_demo_movie() (in module delta.assets) download_model() (in module delta.assets) download_training_set() (in module delta.assets) drift_template() (in module delta.imgops) drift_values (delta.pipeline.Position attribute) dtype (delta.utils.XPReader attribute) E edges (delta.lineage.CellFeatures attribute) estimate_classweights() (in module delta.data) estimate_seg2D_classweights() (in module delta.data) eucl() (in module delta.utils) extend() (delta.lineage.Lineage method) F features() (delta.lineage.Cell method) filehandle (delta.utils.XPReader attribute) filetype (delta.utils.XPReader attribute) filter_areas() (in module delta.imgops) find_contours() (in module delta.imgops) find_poles() (in module delta.utils) find_roi_boxes() (delta.pipeline.Position static method) first_frame (delta.lineage.Cell attribute) (delta.pipeline.ROI attribute) fluo (delta.lineage.CellFeatures attribute) fluo_stack (delta.pipeline.ROI attribute) frames (delta.lineage.Cell property) (delta.utils.XPReader attribute) from_xarray() (delta.pipeline.ROI static method) full() (delta.imgops.CroppingBox class method) G get_fluo() (delta.pipeline.ROI method) get_img() (delta.pipeline.ROI method) get_labels() (delta.pipeline.ROI method) get_seg() (delta.pipeline.ROI method) get_segmentation_inputs() (delta.pipeline.ROI method) get_tracking_inputs() (delta.pipeline.ROI method) growthrate_area (delta.lineage.CellFeatures attribute) growthrate_length (delta.lineage.CellFeatures attribute) H hash_model() (in module delta.model) histogram_voodoo() (in module delta.data) I illumination_voodoo() (in module delta.data) image_edges() (in module delta.utils) image_path() (delta.utils.XPReader method) images() (delta.utils.XPReader method) img_stack (delta.pipeline.ROI attribute) K kernel() (in module delta.data) L label_seg() (in module delta.imgops) label_stack (delta.pipeline.ROI attribute) labels() (delta.pipeline.Position method) last_frame (delta.lineage.Cell property) length (delta.lineage.CellFeatures attribute) Lineage (class in delta.lineage) lineage (delta.pipeline.ROI attribute) list_files() (in module delta.utils) load_netcdf() (delta.pipeline.Position class method) (delta.pipeline.ROI class method) load_training_dataset_seg() (in module delta.data) M make_weights() (in module delta.data) memory_growth_limit (delta.config.BackendConfig attribute) merge() (delta.lineage.Lineage method) (delta.pipeline.ROI method) min_area (delta.config.ModelConfig attribute) model() (delta.config.ModelConfig method) model_path (delta.config.ModelConfig attribute) ModelConfig (class in delta.config) models (delta.config.Config attribute) module delta delta.assets delta.config delta.data delta.imgops delta.lineage delta.model delta.pipeline delta.utils motherid (delta.lineage.Cell attribute) N new_pole (delta.lineage.CellFeatures attribute) NonConsecutiveCellsError number_of_cores (delta.config.BackendConfig attribute) O old_pole (delta.lineage.CellFeatures attribute) on_epoch_end() (delta.data.SegmentationDataset method) OverlappingCellsError P patch() (delta.imgops.CroppingBox method) path (delta.utils.XPReader attribute) path_from_prototype() (in module delta.data) pathfinding() (in module delta.utils) perimeter (delta.lineage.CellFeatures attribute) Pipeline (class in delta.pipeline) pivot() (delta.lineage.Lineage method) (delta.pipeline.ROI method) pixelwise_weighted_binary_crossentropy_seg() (in module delta.model) pixelwise_weighted_binary_crossentropy_track() (in module delta.model) plot() (delta.lineage.Lineage method) poles() (delta.lineage.Cell method) Position (class in delta.pipeline) position_nb (delta.pipeline.Position attribute) positions (delta.pipeline.Pipeline attribute) (delta.utils.XPReader attribute) postprocess() (in module delta.imgops) predict_compile_from_seg_track() (in module delta.data) predict_generator_seg() (in module delta.data) preprocess() (delta.pipeline.Position method) print_diffs() (in module delta.utils) process() (delta.pipeline.Pipeline method) process_segmentation_outputs() (delta.pipeline.ROI method) process_tracking_outputs() (delta.pipeline.ROI method) R random_colors() (in module delta.utils) random_crop() (in module delta.data) read() (delta.config.Config static method) read_image() (in module delta.imgops) read_json() (in module delta.config) read_reshape() (in module delta.imgops) read_toml() (in module delta.config) reader (delta.pipeline.Pipeline attribute) rescale_image() (in module delta.imgops) resfolder (delta.pipeline.Pipeline attribute) resize() (delta.imgops.CroppingBox method) resize_image() (in module delta.imgops) resize_labels() (in module delta.imgops) resize_mask() (in module delta.imgops) resizing_tolerable() (delta.config.ModelConfig method) results_movie() (delta.pipeline.Position method) ROI (class in delta.pipeline) roi_features() (in module delta.utils) roi_nb (delta.pipeline.ROI attribute) rois (delta.pipeline.Position attribute) rotate (delta.pipeline.Position attribute) rotate() (in module delta.imgops) S save() (delta.pipeline.Position method) save_result_seg() (in module delta.data) save_result_track() (in module delta.data) scaling (delta.pipeline.ROI attribute) seg_stack (delta.pipeline.ROI attribute) seg_weights() (in module delta.data) seg_weights_2D() (in module delta.data) segment() (delta.pipeline.Position method) (delta.pipeline.ROI method) SegmentationDataset (class in delta.data) serialize() (delta.config.Config method) shape (delta.imgops.CroppingBox property) (delta.pipeline.Position attribute) size (delta.imgops.CroppingBox property) smart_elastic_deform() (in module delta.data) smart_resize() (in module delta.imgops) split() (delta.lineage.Lineage method) (delta.pipeline.ROI method) stitch_pic() (in module delta.imgops) swap_poles() (delta.lineage.CellFeatures method) (delta.lineage.Lineage method) (delta.pipeline.ROI method) T target_size (delta.config.ModelConfig attribute) tensorboard_callback() (in module delta.utils) to_integer_values() (in module delta.imgops) to_netcdf() (delta.pipeline.Position method) (delta.pipeline.ROI method) to_xarray() (delta.pipeline.ROI method) tolerable_resizing_factor (delta.config.ModelConfig attribute) track() (delta.pipeline.Position method) (delta.pipeline.ROI method) track_poles() (in module delta.utils) tracking_box() (delta.imgops.CroppingBox static method) tracking_scores() (in module delta.utils) tracking_weights() (in module delta.data) train_generator_track() (in module delta.data) training_callbacks() (in module delta.utils) U unet() (in module delta.model) unet_rois() (in module delta.model) unet_seg() (in module delta.model) unet_track() (in module delta.model) unstack_acc() (in module delta.model) update() (delta.config.BackendConfig method) (delta.config.Config method) (delta.config.ModelConfig method) W whole_frame_drift (delta.config.Config attribute) width (delta.lineage.CellFeatures attribute) write() (delta.config.Config method) write_toml() (in module delta.config) write_video() (in module delta.utils) X x (delta.utils.XPReader attribute) xbr (delta.imgops.CroppingBox attribute) XPReader (class in delta.utils) xtl (delta.imgops.CroppingBox attribute) Y y (delta.utils.XPReader attribute) ybr (delta.imgops.CroppingBox attribute) ytl (delta.imgops.CroppingBox attribute)