Index

_

__init__() (cellpose.models.CellposeModel method), [1]

A

add_model() (in module cellpose.io) aggregated_jaccard_index() (in module cellpose.metrics)

assign_device() (in module cellpose.core) average_precision() (in module cellpose.metrics) average_tiles() (in module cellpose.transforms)

B

backbone (cellpose.models.CellposeModel attribute), [1] BaseModel (class in cellpose.vit)

boundary_scores() (in module cellpose.metrics) builtin (cellpose.models.CellposeModel attribute), [1]

C

cellpose.core module cellpose.dynamics module cellpose.io module cellpose.metrics module cellpose.models module cellpose.plot module

cellpose.train module cellpose.transforms module cellpose.utils module CellposeModel (class in cellpose.models), [1] circleMask() (in module cellpose.utils) compute_masks() (in module cellpose.dynamics) convert_image() (in module cellpose.transforms) CPDINO (class in cellpose.vit) CPSAM (class in cellpose.vit)

D

device (cellpose.models.CellposeModel attribute), [1] (cellpose.vit.BaseModel property) diam_mean (cellpose.models.CellposeModel attribute), [1] diameters() (in module cellpose.utils) dilate_masks() (in module cellpose.utils)

disk() (in module cellpose.plot) distance_to_boundary() (in module cellpose.utils) download_url_to_file() (in module cellpose.utils) dtype (cellpose.vit.BaseModel property) dx_to_circ() (in module cellpose.plot)

E

eval() (cellpose.models.CellposeModel method), [1], [2], [3]

F

fill_holes_and_remove_small_masks() (in module cellpose.utils) flow_error() (in module cellpose.dynamics)

flush() (cellpose.utils.TqdmToLogger method) follow_flows() (in module cellpose.dynamics)

G

gaussian_kernel() (in module cellpose.transforms) get_image_files() (in module cellpose.io) get_label_files() (in module cellpose.io) get_mask_compactness() (in module cellpose.utils) get_mask_perimeters() (in module cellpose.utils)

get_mask_stats() (in module cellpose.utils) get_masks_torch() (in module cellpose.dynamics) get_masks_unet() (in module cellpose.utils) get_outline_multi() (in module cellpose.utils) get_perimeter() (in module cellpose.utils)

I

image_to_rgb() (in module cellpose.plot) imread() (in module cellpose.io) imread_2D() (in module cellpose.io)

imread_3D() (in module cellpose.io) imsave() (in module cellpose.io) interesting_patch() (in module cellpose.plot)

L

labels_to_flows() (in module cellpose.dynamics) load_images_labels() (in module cellpose.io)

load_train_test_data() (in module cellpose.io) logger_setup() (in module cellpose.io)

M

make_tiles() (in module cellpose.transforms) mask_ious() (in module cellpose.metrics) mask_overlay() (in module cellpose.plot) mask_rgb() (in module cellpose.plot) masks_flows_to_seg() (in module cellpose.io) masks_to_edges() (in module cellpose.utils) masks_to_flows_gpu() (in module cellpose.dynamics) masks_to_flows_gpu_3d() (in module cellpose.dynamics) masks_to_outlines() (in module cellpose.utils) max_pool1d() (in module cellpose.dynamics)

max_pool_nd() (in module cellpose.dynamics) module cellpose.core cellpose.dynamics cellpose.io cellpose.metrics cellpose.models cellpose.plot cellpose.train cellpose.transforms cellpose.utils

N

nbase (cellpose.models.CellposeModel attribute), [1] nclasses (cellpose.models.CellposeModel attribute), [1] net (cellpose.models.CellposeModel attribute), [1]

normalize99() (in module cellpose.transforms) normalize99_tile() (in module cellpose.transforms) normalize_img() (in module cellpose.transforms)

O

outline_view() (in module cellpose.plot) outlines_list() (in module cellpose.utils)

outlines_list_multi() (in module cellpose.utils) outlines_list_single() (in module cellpose.utils)

P

pad_image_ND() (in module cellpose.transforms)

pretrained_model (cellpose.models.CellposeModel attribute), [1]

R

radius_distribution() (in module cellpose.utils) random_rotate_and_resize() (in module cellpose.transforms) remove_bad_flow_masks() (in module cellpose.dynamics) remove_edge_masks() (in module cellpose.utils) remove_model() (in module cellpose.io)

resize_and_compute_masks() (in module cellpose.dynamics) resize_image() (in module cellpose.transforms) resize_safe() (in module cellpose.transforms) run_3D() (in module cellpose.core) run_net() (in module cellpose.core)

S

save_masks() (in module cellpose.io) save_model() (cellpose.vit.BaseModel method) save_rois() (in module cellpose.io) save_to_png() (in module cellpose.io)

show_segmentation() (in module cellpose.plot) size_distribution() (in module cellpose.utils) smooth_sharpen_img() (in module cellpose.transforms) steps_interp() (in module cellpose.dynamics) stitch3D() (in module cellpose.utils)

T

TqdmToLogger (class in cellpose.utils)

train_seg() (in module cellpose.train)

U

unaugment_tiles() (in module cellpose.transforms)

use_gpu() (in module cellpose.core)

W

write() (cellpose.utils.TqdmToLogger method)