Index

A

add_module() (histo_kit.grand_qc.model.GrandQC method) apply() (histo_kit.grand_qc.model.GrandQC method) apply_mask() (in module histo_kit.utils.apply_mask) ART_DARKSPOT (histo_kit.grand_qc.artifacts.Artifact attribute)

ART_EDGE (histo_kit.grand_qc.artifacts.Artifact attribute) ART_FOCUS (histo_kit.grand_qc.artifacts.Artifact attribute) ART_FOLD (histo_kit.grand_qc.artifacts.Artifact attribute) ART_PEN (histo_kit.grand_qc.artifacts.Artifact attribute) Artifact (class in histo_kit.grand_qc.artifacts)

B

bfloat16() (histo_kit.grand_qc.model.GrandQC method) BG_MODEL (histo_kit.grand_qc.artifacts.Artifact attribute)

BG_THR (histo_kit.grand_qc.artifacts.Artifact attribute) buffers() (histo_kit.grand_qc.model.GrandQC method)

C

call_super_init (histo_kit.grand_qc.model.GrandQC attribute) children() (histo_kit.grand_qc.model.GrandQC method) cluster_regions() (in module histo_kit.tissue_seg.postprocessing) color() (histo_kit.grand_qc.artifacts.Artifact method)

coords (histo_kit.grand_qc.dataset.GrandQCDataset attribute) cpu() (histo_kit.grand_qc.model.GrandQC method) create_folder() (in module histo_kit.utils.file_utils) cuda() (histo_kit.grand_qc.model.GrandQC method)

D

detect_artifacts_slide() (in module histo_kit.grand_qc.artifact_detection)

double() (histo_kit.grand_qc.model.GrandQC method) dump_patches (histo_kit.grand_qc.model.GrandQC attribute)

E

EM_iter_hist() (in module histo_kit.tissue_seg.find_thr)

eval() (histo_kit.grand_qc.model.GrandQC method) extra_repr() (histo_kit.grand_qc.model.GrandQC method)

F

find_thr() (in module histo_kit.tissue_seg.find_thr)

float() (histo_kit.grand_qc.model.GrandQC method) forward() (histo_kit.grand_qc.model.GrandQC method)

G

GaMRed_hist() (in module histo_kit.tissue_seg.find_thr) gaussian_window() (in module histo_kit.utils.image) get_basename() (in module histo_kit.utils.file_utils) get_buffer() (histo_kit.grand_qc.model.GrandQC method) get_extra_state() (histo_kit.grand_qc.model.GrandQC method) get_parameter() (histo_kit.grand_qc.model.GrandQC method) get_patch_grid() (in module histo_kit.utils.patches) get_pixel_distribution() (in module histo_kit.tissue_seg.find_thr)

get_regions_location() (in module histo_kit.utils.wsi) get_strel_disk() (in module histo_kit.utils.matlab2python) get_submodule() (histo_kit.grand_qc.model.GrandQC method) get_thr_image() (in module histo_kit.tissue_seg.find_thr) get_wsi_ind_matlab() (in module histo_kit.utils.matlab2python) gmm_init_dp_hist() (in module histo_kit.tissue_seg.find_thr) GrandQC (class in histo_kit.grand_qc.model) grandQC (histo_kit.grand_qc.model.GrandQC attribute) GrandQCDataset (class in histo_kit.grand_qc.dataset)

H

half() (histo_kit.grand_qc.model.GrandQC method) histo_kit.foundation_models module histo_kit.grand_qc.artifact_detection module histo_kit.grand_qc.artifacts module histo_kit.grand_qc.dataset module histo_kit.grand_qc.model module histo_kit.grand_qc.visualisation module histo_kit.mil module histo_kit.stain_normalisation module

histo_kit.tissue_seg.bg_segmentation module histo_kit.tissue_seg.find_thr module histo_kit.tissue_seg.postprocessing module histo_kit.utils.apply_mask module histo_kit.utils.file_utils module histo_kit.utils.image module histo_kit.utils.matlab2python module histo_kit.utils.patches module histo_kit.utils.wsi module

I

ipu() (histo_kit.grand_qc.model.GrandQC method)

L

list2cell() (in module histo_kit.utils.matlab2python)

load_state_dict() (histo_kit.grand_qc.model.GrandQC method) load_wsi_mag() (in module histo_kit.utils.wsi)

M

make_artifacts_color_map() (in module histo_kit.grand_qc.visualisation) make_overlay() (in module histo_kit.grand_qc.visualisation) merge_patches() (in module histo_kit.utils.patches) module histo_kit.foundation_models histo_kit.grand_qc.artifact_detection histo_kit.grand_qc.artifacts histo_kit.grand_qc.dataset histo_kit.grand_qc.model histo_kit.grand_qc.visualisation histo_kit.mil histo_kit.stain_normalisation histo_kit.tissue_seg.bg_segmentation histo_kit.tissue_seg.find_thr histo_kit.tissue_seg.postprocessing histo_kit.utils.apply_mask histo_kit.utils.file_utils histo_kit.utils.image histo_kit.utils.matlab2python histo_kit.utils.patches histo_kit.utils.wsi

modules() (histo_kit.grand_qc.model.GrandQC method)

N

named_buffers() (histo_kit.grand_qc.model.GrandQC method) named_children() (histo_kit.grand_qc.model.GrandQC method) named_modules() (histo_kit.grand_qc.model.GrandQC method)

named_parameters() (histo_kit.grand_qc.model.GrandQC method) NORM (histo_kit.grand_qc.artifacts.Artifact attribute) norm_pdf() (in module histo_kit.tissue_seg.find_thr)

O

otsuthresh() (in module histo_kit.tissue_seg.find_thr)

P

pad_value (histo_kit.grand_qc.dataset.GrandQCDataset attribute) parameters() (histo_kit.grand_qc.model.GrandQC method) patch_size (histo_kit.grand_qc.dataset.GrandQCDataset attribute)

patch_wsi() (in module histo_kit.utils.patches) plot_rgb_hist() (in module histo_kit.tissue_seg.bg_segmentation) prep_fn (histo_kit.grand_qc.dataset.GrandQCDataset attribute) preprocess() (histo_kit.grand_qc.dataset.GrandQCDataset method)

R

read_region() (in module histo_kit.utils.wsi) register_backward_hook() (histo_kit.grand_qc.model.GrandQC method) register_buffer() (histo_kit.grand_qc.model.GrandQC method) register_forward_hook() (histo_kit.grand_qc.model.GrandQC method) register_forward_pre_hook() (histo_kit.grand_qc.model.GrandQC method) register_full_backward_hook() (histo_kit.grand_qc.model.GrandQC method) register_full_backward_pre_hook() (histo_kit.grand_qc.model.GrandQC method)

register_load_state_dict_post_hook() (histo_kit.grand_qc.model.GrandQC method) register_module() (histo_kit.grand_qc.model.GrandQC method) register_parameter() (histo_kit.grand_qc.model.GrandQC method) register_state_dict_pre_hook() (histo_kit.grand_qc.model.GrandQC method) remove_black_pen() (in module histo_kit.tissue_seg.postprocessing) remove_gray_stains() (in module histo_kit.tissue_seg.postprocessing) remove_small_objects() (in module histo_kit.tissue_seg.postprocessing) requires_grad_() (histo_kit.grand_qc.model.GrandQC method)

S

save_rescaled() (in module histo_kit.utils.file_utils) segment_tissue() (in module histo_kit.tissue_seg.bg_segmentation) set_extra_state() (histo_kit.grand_qc.model.GrandQC method)

share_memory() (histo_kit.grand_qc.model.GrandQC method) slide_info() (in module histo_kit.utils.wsi) state_dict() (histo_kit.grand_qc.model.GrandQC method)

T

T_destination (histo_kit.grand_qc.model.GrandQC attribute) to() (histo_kit.grand_qc.model.GrandQC method) to_empty() (histo_kit.grand_qc.model.GrandQC method) to_tensor_x() (in module histo_kit.utils.image)

train() (histo_kit.grand_qc.model.GrandQC method) training (histo_kit.grand_qc.model.GrandQC attribute) two_step_otsu() (in module histo_kit.tissue_seg.find_thr) type() (histo_kit.grand_qc.model.GrandQC method)

W

wsi_tissue_seg() (in module histo_kit.tissue_seg.bg_segmentation)

X

xpu() (histo_kit.grand_qc.model.GrandQC method)

Z

zero_grad() (histo_kit.grand_qc.model.GrandQC method)