Index A | B | C | D | E | F | G | H | I | K | L | M | N | O | P | R | S | T | U | W A add_gaussian_noise() (in module omnipose.utils) add_poisson_noise() (in module omnipose.utils) affinity_to_boundary() (in module omnipose.core) affinity_to_edges() (in module omnipose.core) affinity_to_masks() (in module omnipose.core) aggregated_jaccard_index() (in module cellpose_omni.metrics) apply_gaussian_blur() (in module omnipose.utils) apply_ncolor() (in module omnipose.plot) apply_shifts() (in module omnipose.utils) ARM (in module cellpose_omni.models) auto_chunked_quantile() (in module omnipose.utils) average_precision() (in module cellpose_omni.metrics) average_tiles() (in module cellpose_omni.transforms) average_tiles_ND() (in module omnipose.utils) B batch_labels() (in module omnipose.core) bbox_to_slice() (in module omnipose.utils) BD_MODEL_NAMES (in module cellpose_omni.models) border_indices() (in module omnipose.utils) boundary_scores() (in module cellpose_omni.metrics) boundary_to_affinity() (in module omnipose.core) boundary_to_masks() (in module omnipose.core) C C1_BD_MODELS (in module cellpose_omni.models) C1_MODELS (in module cellpose_omni.models) C2_BD_MODELS (in module cellpose_omni.models) C2_MODEL_NAMES (in module cellpose_omni.models) C2_MODELS (in module cellpose_omni.models) cache_model_path() (in module cellpose_omni.models) Cellpose (class in cellpose_omni.models) cellpose_omni.dynamics module cellpose_omni.io module cellpose_omni.metrics module cellpose_omni.models module cellpose_omni.plot module cellpose_omni.transforms module CellposeModel (class in cellpose_omni.models) check_dir() (in module cellpose_omni.io) clean_boundary() (in module omnipose.utils) color_from_RGB() (in module omnipose.plot) colored_line() (in module omnipose.plot) colored_line_segments() (in module omnipose.plot) colorize() (in module omnipose.plot) compute_final_shifts() (in module omnipose.utils) compute_masks() (in module cellpose_omni.dynamics) (in module omnipose.core) concatenate_labels() (in module omnipose.core) convert_image() (in module cellpose_omni.transforms) correct_illumination() (in module omnipose.utils) CP_MODELS (in module cellpose_omni.models) create_colormap() (in module omnipose.plot) crop_bbox() (in module omnipose.utils) cross_reg() (in module omnipose.utils) cubestats() (in module omnipose.utils) curve_filter() (in module omnipose.utils) custom_new_gc() (in module omnipose.plot) D deprecation_warning_cellprob_dist_threshold() (in module cellpose_omni.models) diameters() (in module omnipose.core) disk() (in module cellpose_omni.plot) dist_to_diam() (in module omnipose.core) div_rescale() (in module omnipose.core) divergence() (in module omnipose.core) divergence_torch() (in module omnipose.core) do_warp() (in module omnipose.core) dx_to_circ() (in module cellpose_omni.plot) E eval() (cellpose_omni.models.Cellpose method) (cellpose_omni.models.CellposeModel method) (cellpose_omni.models.SizeModel method) extract_skeleton() (in module omnipose.utils) F faded_segment_resample() (in module omnipose.plot) fill_holes_and_remove_small_masks() (in module omnipose.core) find_files() (in module omnipose.utils) find_nonzero_runs() (in module omnipose.utils) findbetween() (in module omnipose.utils) flow_error() (in module cellpose_omni.metrics) (in module omnipose.core) follow_flows() (in module cellpose_omni.dynamics) (in module omnipose.core) G gaussian_kernel() (in module omnipose.utils) generate_slices() (in module omnipose.utils) get_boundary() (in module omnipose.core) (in module omnipose.utils) get_contour() (in module omnipose.core) get_edge_masks() (in module omnipose.utils) get_flip() (in module omnipose.utils) get_image_files() (in module cellpose_omni.io) get_label_files() (in module cellpose_omni.io) get_link_matrix() (in module omnipose.core) get_links() (in module omnipose.core) get_masks() (in module cellpose_omni.dynamics) (in module omnipose.core) get_masks_cp() (in module omnipose.core) get_module() (in module omnipose.utils) get_neigh_inds() (in module omnipose.core) (in module omnipose.utils) get_neighbors() (in module omnipose.utils) get_neighbors_torch() (in module omnipose.utils) get_niter() (in module omnipose.core) get_spruepoints() (in module omnipose.utils) get_steps() (in module omnipose.utils) getname() (in module cellpose_omni.io) (in module omnipose.utils) H hysteresis_threshold() (in module omnipose.utils) I image_grid() (in module omnipose.plot) image_to_rgb() (in module cellpose_omni.plot) imread() (in module cellpose_omni.io) imsave() (in module cellpose_omni.io) imshow() (in module omnipose.plot) imwrite() (in module cellpose_omni.io) interesting_patch() (in module cellpose_omni.plot) is_integer() (in module omnipose.utils) K kernel_setup() (in module omnipose.utils) L labels_to_flows() (in module cellpose_omni.dynamics) (in module omnipose.core) linker_label_to_links() (in module omnipose.core) links_to_boundary() (in module omnipose.core) links_to_mask() (in module omnipose.core) load_links() (in module cellpose_omni.io) load_nested_list() (in module omnipose.utils) load_train_test_data() (in module cellpose_omni.io) localnormalize() (in module omnipose.utils) localnormalize_GPU() (in module omnipose.utils) logger_setup() (in module cellpose_omni.io) loss() (in module omnipose.core) loss_fn() (cellpose_omni.models.CellposeModel method) M make_tiles() (in module cellpose_omni.transforms) make_tiles_ND() (in module omnipose.utils) make_unique() (in module omnipose.utils) map_coordinates() (in module cellpose_omni.dynamics) mask_ious() (in module cellpose_omni.metrics) mask_outline_overlay() (in module omnipose.utils) mask_overlay() (in module cellpose_omni.plot) mask_rgb() (in module cellpose_omni.plot) masks_flows_to_seg() (in module cellpose_omni.io) masks_to_affinity() (in module omnipose.core) masks_to_flows() (in module cellpose_omni.dynamics) (in module omnipose.core) masks_to_flows_batch() (in module omnipose.core) masks_to_flows_cpu() (in module cellpose_omni.dynamics) masks_to_flows_gpu() (in module cellpose_omni.dynamics) masks_to_flows_torch() (in module omnipose.core) mode_filter() (in module omnipose.core) MODEL_DIR (in module cellpose_omni.models) MODEL_NAMES (in module cellpose_omni.models) model_path() (in module cellpose_omni.models) models_logger (in module cellpose_omni.models) module cellpose_omni.dynamics cellpose_omni.io cellpose_omni.metrics cellpose_omni.models cellpose_omni.plot cellpose_omni.transforms omnipose.core omnipose.plot omnipose.utils mono_mask_bd() (in module omnipose.utils) most_frequent() (in module omnipose.core) move_axis() (in module cellpose_omni.transforms) move_axis_new() (in module cellpose_omni.transforms) move_min_dim() (in module cellpose_omni.transforms) moving_average() (in module omnipose.utils) MXNET_ENABLED (in module cellpose_omni.models) N normalize99() (in module cellpose_omni.transforms) (in module omnipose.utils) normalize_field() (in module cellpose_omni.transforms) (in module omnipose.utils) normalize_image() (in module omnipose.utils) normalize_img() (in module cellpose_omni.transforms) normalize_stack() (in module omnipose.utils) O OMNI_INSTALLED (in module cellpose_omni.models) omnipose.core module omnipose.plot module omnipose.utils module original_random_rotate_and_resize() (in module cellpose_omni.transforms) outline_view() (in module cellpose_omni.plot) outlines_to_text() (in module cellpose_omni.io) P pad_image_ND() (in module cellpose_omni.transforms) pairwise_registration() (in module omnipose.utils) parametrize() (in module omnipose.core) parametrize_contours() (in module omnipose.core) phase_cross_correlation_GPU() (in module omnipose.utils) phase_cross_correlation_GPU_old() (in module omnipose.utils) plot_edges() (in module omnipose.plot) R random_crop_warp() (in module omnipose.core) random_rotate_and_resize() (in module cellpose_omni.transforms) (in module omnipose.core) ravel_index() (in module omnipose.utils) remap_pairs() (in module omnipose.utils) remove_bad_flow_masks() (in module cellpose_omni.dynamics) (in module omnipose.core) rescale() (in module omnipose.utils) reshape() (in module cellpose_omni.transforms) reshape_and_normalize_data() (in module cellpose_omni.transforms) reshape_train_test() (in module cellpose_omni.transforms) resize_image() (in module cellpose_omni.transforms) rgb_flow() (in module omnipose.plot) rotate() (in module omnipose.utils) S safe_divide() (in module omnipose.utils) save_masks() (in module cellpose_omni.io) save_nested_list() (in module omnipose.utils) save_server() (in module cellpose_omni.io) save_to_png() (in module cellpose_omni.io) segmented_resample() (in module omnipose.plot) shift_stack() (in module omnipose.utils) shifts_to_slice() (in module omnipose.utils) show_segmentation() (in module cellpose_omni.plot) sigmoid() (in module omnipose.core) sinebow() (in module omnipose.plot) size_model_path() (in module cellpose_omni.models) SizeModel (class in cellpose_omni.models) split_spacetime() (in module omnipose.core) step_factor() (in module omnipose.core) steps2D() (in module cellpose_omni.dynamics) steps2D_interp() (in module cellpose_omni.dynamics) steps3D() (in module cellpose_omni.dynamics) steps_batch() (in module omnipose.core) steps_to_indices() (in module omnipose.utils) subsample_affinity() (in module omnipose.utils) T thin_skeleton() (in module omnipose.utils) to_16_bit() (in module omnipose.utils) to_8_bit() (in module omnipose.utils) torch_norm() (in module omnipose.utils) train() (cellpose_omni.models.CellposeModel method) (cellpose_omni.models.SizeModel method) U unaugment_tiles() (in module cellpose_omni.transforms) unaugment_tiles_ND() (in module omnipose.utils) unravel_index() (in module omnipose.utils) update_axis() (in module cellpose_omni.transforms) W write_links() (in module cellpose_omni.io)