Index

B

box_slice_idx() (in module scout.utils)

C

calculate_mfi() (in module scout.nuclei) calculate_stdev() (in module scout.nuclei) chunk_coordinates() (in module scout.utils)

chunk_dims() (in module scout.utils) clahe() (in module scout.preprocess) curvature_probability() (in module scout.detection)

D

denoise() (in module scout.preprocess) denoise2d() (in module scout.preprocess) detect_nuclei_parallel() (in module scout.detection)

downsample() (in module scout.segment) dx() (in module scout.curvature) dy() (in module scout.curvature) dz() (in module scout.curvature)

E

eigen3() (in module scout.curvature)

eigvals_of_weingarten() (in module scout.curvature) extract_box() (in module scout.utils)

F

f_score() (in module scout.score)

files_in_dir() (in module scout.utils)

G

gaussian_blur() (in module scout.preprocess) gaussian_blur_parallel() (in module scout.preprocess)

gradient() (in module scout.curvature) gradient_numpy() (in module scout.curvature)

I

imread() (in module scout.io) imread_folder() (in module scout.io) imread_parallel() (in module scout.io)

imsave() (in module scout.io) insert_box() (in module scout.utils) intensity_probability() (in module scout.detection)

M

main() (in module scout.score) match_centroids() (in module scout.score) module scout.curvature scout.detection scout.io scout.niche scout.nuclei scout.preprocess scout.score scout.segment scout.utils

N

new_zarr() (in module scout.io) new_zarr_like() (in module scout.io)

nuclei_centers_probability() (in module scout.detection) nucleus_probability() (in module scout.detection)

O

open() (in module scout.io)

P

parse_into_array() (in module scout.score)

pmap_chunks() (in module scout.utils) precision() (in module scout.score)

R

read_voxel_size() (in module scout.utils)

recall() (in module scout.score) remove_background() (in module scout.preprocess)

S

score_centroids() (in module scout.score) scout.curvature module scout.detection module scout.io module scout.niche module scout.nuclei module

scout.preprocess module scout.score module scout.segment module scout.utils module SharedMemory (class in scout.utils) structure_tensor() (in module scout.curvature)

T

tifs_in_dir() (in module scout.utils)

txn() (scout.utils.SharedMemory method)

W

weingarten() (in module scout.curvature)