Index

_

__concentration_selected() (torch_staintools.augmentor.base.Augmentor method) __inplace_augment_helper() (torch_staintools.augmentor.base.Augmentor method) __inplace_tensor() (torch_staintools.augmentor.base.Augmentor method) __size_limit (torch_staintools.cache.base.Cache attribute) (torch_staintools.cache.tensor_cache.TensorCache attribute) _abc_impl (torch_staintools.cache.base.Cache attribute) (torch_staintools.cache.tensor_cache.TensorCache attribute) (torch_staintools.functional.stain_extraction.extractor.BaseExtractor attribute) (torch_staintools.functional.stain_extraction.macenko.MacenkoExtractor attribute) (torch_staintools.functional.stain_extraction.vahadane.VahadaneExtractor attribute) _dump_helper() (torch_staintools.cache.base.Cache method) (torch_staintools.cache.tensor_cache.TensorCache method)

_init_cache() (torch_staintools.base_module.base.CachedRNGModule static method) _lipschitz_constant() (in module torch_staintools.functional.optimization.solver) _ls_batch() (in module torch_staintools.functional.optimization.dict_learning) _mean_std_helper() (torch_staintools.normalizer.reinhard.ReinhardNormalizer static method) _new_cache() (torch_staintools.cache.base.Cache method) (torch_staintools.cache.tensor_cache.TensorCache method) _rng_to() (torch_staintools.base_module.base.CachedRNGModule static method) _tensor_cache (torch_staintools.base_module.base.CachedRNGModule attribute) _tensor_cache_helper() (torch_staintools.base_module.base.CachedRNGModule method) _to_device() (torch_staintools.cache.tensor_cache.TensorCache static method) _write_to_cache_helper() (torch_staintools.cache.base.Cache method) (torch_staintools.cache.tensor_cache.TensorCache method)

A

angular_helper() (torch_staintools.functional.stain_extraction.macenko.MacenkoExtractor static method) augment() (torch_staintools.augmentor.base.Augmentor static method)

Augmentor (class in torch_staintools.augmentor.base) AugmentorBuilder (class in torch_staintools.augmentor.factory)

B

BaseExtractor (class in torch_staintools.functional.stain_extraction.extractor) build() (torch_staintools.augmentor.base.Augmentor class method) (torch_staintools.augmentor.factory.AugmentorBuilder static method) (torch_staintools.base_module.base.CachedRNGModule class method) (torch_staintools.cache.base.Cache class method) (torch_staintools.cache.tensor_cache.TensorCache class method) (torch_staintools.normalizer.base.Normalizer class method) (torch_staintools.normalizer.factory.NormalizerBuilder static method) (torch_staintools.normalizer.reinhard.ReinhardNormalizer class method) (torch_staintools.normalizer.separation.StainSeparation class method)

build_from_name() (in module torch_staintools.functional.stain_extraction.factory)

C

Cache (class in torch_staintools.cache.base) CACHE_FIELD (torch_staintools.base_module.base.CachedRNGModule attribute) cache_initialized() (torch_staintools.base_module.base.CachedRNGModule method) cache_size_limit (torch_staintools.base_module.base.CachedRNGModule property) CachedRNGModule (class in torch_staintools.base_module.base)

channel_rand() (torch_staintools.augmentor.base.Augmentor static method) concentration_method (torch_staintools.augmentor.base.Augmentor attribute) (torch_staintools.normalizer.separation.StainSeparation attribute) coord_descent() (in module torch_staintools.functional.optimization.solver) cov() (torch_staintools.functional.stain_extraction.macenko.MacenkoExtractor static method)

D

data_cache (torch_staintools.cache.base.Cache attribute) (torch_staintools.cache.tensor_cache.TensorCache attribute) DataInput (class in torch_staintools.normalizer.base) default_device() (in module torch_staintools.functional.utility.implementation) default_rng() (in module torch_staintools.functional.utility.implementation) device (torch_staintools.augmentor.base.Augmentor attribute) (torch_staintools.base_module.base.CachedRNGModule attribute) (torch_staintools.cache.tensor_cache.TensorCache attribute)

dict_evaluate() (in module torch_staintools.functional.optimization.dict_learning) dict_learning() (in module torch_staintools.functional.optimization.dict_learning) dump() (torch_staintools.cache.base.Cache method) dump_cache() (torch_staintools.base_module.base.CachedRNGModule method)

F

fit() (torch_staintools.normalizer.base.Normalizer method) (torch_staintools.normalizer.reinhard.ReinhardNormalizer method) (torch_staintools.normalizer.separation.StainSeparation method)

forward() (torch_staintools.augmentor.base.Augmentor method) (torch_staintools.normalizer.base.Normalizer method) (torch_staintools.normalizer.reinhard.ReinhardNormalizer method) (torch_staintools.normalizer.separation.StainSeparation method)

G

get() (torch_staintools.cache.base.Cache method) get_batch() (torch_staintools.cache.base.Cache method) get_concentration_batch() (in module torch_staintools.functional.optimization.dict_learning) get_concentration_one_by_one() (in module torch_staintools.functional.optimization.dict_learning) get_concentrations() (in module torch_staintools.functional.optimization.dict_learning) get_concentrations_single() (in module torch_staintools.functional.optimization.dict_learning) get_eps() (in module torch_staintools.functional.eps)

get_partial() (torch_staintools.functional.stain_extraction.extractor.BaseExtractor method) get_stain_matrix (torch_staintools.augmentor.base.Augmentor attribute) (torch_staintools.normalizer.separation.StainSeparation attribute) get_stain_matrix_from_od() (torch_staintools.functional.stain_extraction.extractor.BaseExtractor static method) (torch_staintools.functional.stain_extraction.macenko.MacenkoExtractor static method) (torch_staintools.functional.stain_extraction.vahadane.VahadaneExtractor static method) get_tissue_mask() (in module torch_staintools.functional.tissue_mask) get_tissue_mask_np() (in module torch_staintools.functional.tissue_mask)

I

img (torch_staintools.normalizer.base.DataInput attribute) img_from_concentration() (in module torch_staintools.functional.utility.implementation) initialize_code() (in module torch_staintools.functional.optimization.sparse_util)

is_cached() (torch_staintools.cache.base.Cache method) (torch_staintools.cache.tensor_cache.TensorCache method) ista() (in module torch_staintools.functional.optimization.solver)

L

lab_to_rgb() (in module torch_staintools.functional.conversion.lab) lasso_loss() (in module torch_staintools.functional.optimization.dict_learning) load() (torch_staintools.cache.base.Cache method) (torch_staintools.cache.tensor_cache.TensorCache method)

luminosity_threshold (torch_staintools.augmentor.base.Augmentor attribute) (torch_staintools.normalizer.reinhard.ReinhardNormalizer attribute)

M

MacenkoExtractor (class in torch_staintools.functional.stain_extraction.macenko) module torch_staintools torch_staintools.augmentor torch_staintools.augmentor.base torch_staintools.augmentor.factory torch_staintools.base_module torch_staintools.base_module.base torch_staintools.cache torch_staintools.cache.base torch_staintools.cache.tensor_cache torch_staintools.functional torch_staintools.functional.conversion torch_staintools.functional.conversion.lab torch_staintools.functional.conversion.od torch_staintools.functional.eps torch_staintools.functional.optimization torch_staintools.functional.optimization.dict_learning torch_staintools.functional.optimization.solver torch_staintools.functional.optimization.sparse_util torch_staintools.functional.stain_extraction torch_staintools.functional.stain_extraction.extractor torch_staintools.functional.stain_extraction.factory torch_staintools.functional.stain_extraction.macenko torch_staintools.functional.stain_extraction.utils torch_staintools.functional.stain_extraction.vahadane torch_staintools.functional.tissue_mask torch_staintools.functional.utility torch_staintools.functional.utility.implementation torch_staintools.normalizer torch_staintools.normalizer.base torch_staintools.normalizer.factory torch_staintools.normalizer.reinhard torch_staintools.normalizer.separation

N

nanstd() (in module torch_staintools.functional.utility.implementation) normalize_helper() (torch_staintools.normalizer.reinhard.ReinhardNormalizer static method) normalize_matrix_rows() (torch_staintools.functional.stain_extraction.extractor.BaseExtractor static method)

Normalizer (class in torch_staintools.normalizer.base) NormalizerBuilder (class in torch_staintools.normalizer.factory) num_stains (torch_staintools.augmentor.base.Augmentor attribute) (torch_staintools.normalizer.separation.StainSeparation attribute)

O

od2rgb() (in module torch_staintools.functional.conversion.od)

P

percentile() (in module torch_staintools.functional.stain_extraction.utils)

Q

query() (torch_staintools.cache.base.Cache method) (torch_staintools.cache.tensor_cache.TensorCache method)

R

randn_range() (torch_staintools.augmentor.base.Augmentor static method) regularizer (torch_staintools.augmentor.base.Augmentor attribute) (torch_staintools.normalizer.separation.StainSeparation attribute) ReinhardNormalizer (class in torch_staintools.normalizer.reinhard) repeat_stain_mat() (torch_staintools.normalizer.separation.StainSeparation static method)

rgb2od() (in module torch_staintools.functional.conversion.od) rgb_to_lab() (in module torch_staintools.functional.conversion.lab) ridge() (in module torch_staintools.functional.optimization.sparse_util) rng (torch_staintools.base_module.base.CachedRNGModule attribute) (torch_staintools.normalizer.separation.StainSeparation attribute)

S

sigma_alpha (torch_staintools.augmentor.base.Augmentor attribute) sigma_beta (torch_staintools.augmentor.base.Augmentor attribute) size_in_bound() (torch_staintools.cache.base.Cache static method) size_limit (torch_staintools.cache.base.Cache property)

sparse_encode() (in module torch_staintools.functional.optimization.dict_learning) stain_matrix_helper() (torch_staintools.functional.stain_extraction.macenko.MacenkoExtractor static method) stain_matrix_target (torch_staintools.normalizer.separation.StainSeparation attribute) StainSeparation (class in torch_staintools.normalizer.separation)

T

target_concentrations (torch_staintools.augmentor.base.Augmentor attribute) (torch_staintools.normalizer.separation.StainSeparation attribute) target_means (torch_staintools.normalizer.reinhard.ReinhardNormalizer attribute) target_stain_idx (torch_staintools.augmentor.base.Augmentor attribute) target_stds (torch_staintools.normalizer.reinhard.ReinhardNormalizer attribute) tensor_cache (torch_staintools.base_module.base.CachedRNGModule property) tensor_from_cache() (torch_staintools.base_module.base.CachedRNGModule method) tensor_from_cache_helper() (torch_staintools.base_module.base.CachedRNGModule static method) TensorCache (class in torch_staintools.cache.tensor_cache) TissueMaskException to() (torch_staintools.base_module.base.CachedRNGModule method) (torch_staintools.cache.tensor_cache.TensorCache method) torch_staintools module torch_staintools.augmentor module torch_staintools.augmentor.base module torch_staintools.augmentor.factory module torch_staintools.base_module module torch_staintools.base_module.base module torch_staintools.cache module torch_staintools.cache.base module torch_staintools.cache.tensor_cache module torch_staintools.functional module torch_staintools.functional.conversion module torch_staintools.functional.conversion.lab module torch_staintools.functional.conversion.od module torch_staintools.functional.eps module

torch_staintools.functional.optimization module torch_staintools.functional.optimization.dict_learning module torch_staintools.functional.optimization.solver module torch_staintools.functional.optimization.sparse_util module torch_staintools.functional.stain_extraction module torch_staintools.functional.stain_extraction.extractor module torch_staintools.functional.stain_extraction.factory module torch_staintools.functional.stain_extraction.macenko module torch_staintools.functional.stain_extraction.utils module torch_staintools.functional.stain_extraction.vahadane module torch_staintools.functional.tissue_mask module torch_staintools.functional.utility module torch_staintools.functional.utility.implementation module torch_staintools.normalizer module torch_staintools.normalizer.base module torch_staintools.normalizer.factory module torch_staintools.normalizer.reinhard module torch_staintools.normalizer.separation module transform() (torch_staintools.normalizer.base.Normalizer method) (torch_staintools.normalizer.reinhard.ReinhardNormalizer method) (torch_staintools.normalizer.separation.StainSeparation method) transpose_trailing() (in module torch_staintools.functional.utility.implementation)

U

update_dict() (in module torch_staintools.functional.optimization.dict_learning)

update_dict_ridge() (in module torch_staintools.functional.optimization.dict_learning) uri (torch_staintools.normalizer.base.DataInput attribute)

V

VahadaneExtractor (class in torch_staintools.functional.stain_extraction.vahadane)

validate_value_type() (torch_staintools.cache.tensor_cache.TensorCache static method)

W

write_batch() (torch_staintools.cache.base.Cache method)

write_to_cache() (torch_staintools.cache.base.Cache method)