Index

A

auto_random_k_bin_labelling() (sakura.utils.data_splitter.DataSplitter method)

auto_random_k_fold_cv_split() (sakura.utils.data_splitter.DataSplitter method) auto_random_stratified_k_bin_labelling() (sakura.utils.data_splitter.DataSplitter method)

B

backward() (sakura.utils.gradient_reverse.NeutralizeLayerF static method) (sakura.utils.gradient_reverse.ReverseLayerF static method)

C

calc_forward_backward_bits() (sakura.utils.size_estimator.SizeEstimator method) calc_input_bits() (sakura.utils.size_estimator.SizeEstimator method)

calc_param_bits() (sakura.utils.size_estimator.SizeEstimator method) collate_fn() (sakura.dataset.rna_count_sparse.SCRNASeqCountDataSparse method)

D

DataSplitter (class in sakura.utils.data_splitter)

dump_latent_to_csv() (sakura.utils.logger.Logger method)

E

estimate_size() (sakura.utils.size_estimator.SizeEstimator method) eval() (sakura.model_controllers.extractor_controller.ExtractorController method) execute_inference() (sakura.sakuraAE.sakuraAE method) export_data() (sakura.dataset.rna_count.SCRNASeqCountData method) (sakura.dataset.rna_count_sparse.SCRNASeqCountDataSparse method)

expr_set_pre_slice() (sakura.dataset.rna_count.SCRNASeqCountData method) (sakura.dataset.rna_count_sparse.SCRNASeqCountDataSparse method) Extractor (class in sakura.models.extractor) ExtractorController (class in sakura.model_controllers.extractor_controller)

F

FCClassifier (class in sakura.models.modules) FCCompressor (class in sakura.models.modules) FCDecoder (class in sakura.models.modules) FCPreEncoder (class in sakura.models.modules) FCRegressor (class in sakura.models.modules) forward() (sakura.models.extractor.Extractor method) (sakura.models.modules.FCClassifier method) (sakura.models.modules.FCCompressor method) (sakura.models.modules.FCDecoder method) (sakura.models.modules.FCPreEncoder method) (sakura.models.modules.FCRegressor method) (sakura.models.modules.LinClassifier method) (sakura.models.modules.LinRegressor method) (sakura.utils.gradient_reverse.NeutralizeLayerF static method) (sakura.utils.gradient_reverse.ReverseLayerF static method)

G

gaussian_mixture() (in module sakura.utils.distributions) GeneralFCLayer (class in sakura.models.modules) generate_splits() (sakura.sakuraAE.sakuraAE method) get_incremental_select_unselect_split() (sakura.utils.data_splitter.DataSplitter method)

get_incremental_train_test_split() (sakura.utils.data_splitter.DataSplitter method) get_k_fold_cv_split() (sakura.utils.data_splitter.DataSplitter method) get_output_sizes() (sakura.utils.size_estimator.SizeEstimator method) get_parameter_sizes() (sakura.utils.size_estimator.SizeEstimator method)

I

Infuser (class in sakura.models.infusor)

insert_external_module() (sakura.sakuraAE.sakuraAE method) integrity_check() (sakura.sakuraAE.sakuraAE method)

K

kl_divergence() (sakura.utils.kl_divergence.KLDivergence method)

KLDivergence (class in sakura.utils.kl_divergence)

L

LinClassifier (class in sakura.models.modules) LinRegressor (class in sakura.models.modules) load_checkpoint() (sakura.model_controllers.extractor_controller.ExtractorController method) (sakura.sakuraAE.sakuraAE method)

log_loss() (sakura.utils.logger.Logger method) log_metric() (sakura.utils.logger.Logger method) log_parameter() (sakura.utils.logger.Logger method) Logger (class in sakura.utils.logger) loss() (sakura.model_controllers.extractor_controller.ExtractorController method)

M

main() (in module sakura.sakuraAE) Mapper (class in sakura.models.mapper) module sakura sakura.dataset sakura.dataset.rna_count sakura.dataset.rna_count_dask sakura.dataset.rna_count_hdf5 sakura.dataset.rna_count_sparse sakura.model_controllers sakura.model_controllers.extractor_controller sakura.models sakura.models.extractor sakura.models.infusor sakura.models.mapper sakura.models.modules sakura.sakuraAE sakura.utils sakura.utils.data_splitter sakura.utils.data_transformations sakura.utils.distributions sakura.utils.gradient_reverse sakura.utils.kl_divergence sakura.utils.logger sakura.utils.par_perturber sakura.utils.size_estimator sakura.utils.sliced_wasserstein

modulebuilder() (in module sakura.models.modules)

N

NeutralizeLayerF (class in sakura.utils.gradient_reverse)

next_epoch() (sakura.model_controllers.extractor_controller.ExtractorController method)

P

parse_args() (in module sakura.sakuraAE)

print_weight_projection() (sakura.model_controllers.extractor_controller.ExtractorController method)

R

rand() (in module sakura.utils.distributions) rand_cirlce2d() (in module sakura.utils.distributions) rand_projections() (sakura.utils.sliced_wasserstein.SlicedWasserstein method) rand_ring2d() (in module sakura.utils.distributions)

rand_uniform() (in module sakura.utils.distributions) randn() (in module sakura.utils.distributions) regularize() (sakura.model_controllers.extractor_controller.ExtractorController method) reset() (sakura.model_controllers.extractor_controller.ExtractorController method) ReverseLayerF (class in sakura.utils.gradient_reverse)

S

sakura module sakura.dataset module sakura.dataset.rna_count module sakura.dataset.rna_count_dask module sakura.dataset.rna_count_hdf5 module sakura.dataset.rna_count_sparse module sakura.model_controllers module sakura.model_controllers.extractor_controller module sakura.models module sakura.models.extractor module sakura.models.infusor module sakura.models.mapper module sakura.models.modules module sakura.sakuraAE module sakura.utils module sakura.utils.data_splitter module

sakura.utils.data_transformations module sakura.utils.distributions module sakura.utils.gradient_reverse module sakura.utils.kl_divergence module sakura.utils.logger module sakura.utils.par_perturber module sakura.utils.size_estimator module sakura.utils.sliced_wasserstein module sakuraAE (class in sakura.sakuraAE) save_checkpoint() (sakura.model_controllers.extractor_controller.ExtractorController method) (sakura.sakuraAE.sakuraAE method) save_config() (sakura.utils.logger.Logger method) save_splits() (sakura.utils.logger.Logger method) SCRNASeqCountData (class in sakura.dataset.rna_count) SCRNASeqCountDataDask (class in sakura.dataset.rna_count_dask) SCRNASeqCountDataSparse (class in sakura.dataset.rna_count_sparse) select_item_dict() (sakura.model_controllers.extractor_controller.ExtractorController method) select_loss_dict() (sakura.model_controllers.extractor_controller.ExtractorController method) setup_dataset() (sakura.sakuraAE.sakuraAE method) setup_optimizer() (sakura.model_controllers.extractor_controller.ExtractorController method) SizeEstimator (class in sakura.utils.size_estimator) sliced_wasserstein_distance() (sakura.utils.sliced_wasserstein.SlicedWasserstein method) SlicedWasserstein (class in sakura.utils.sliced_wasserstein) StandardNormalizer (class in sakura.utils.data_transformations) swiss_roll() (in module sakura.utils.distributions)

T

test() (sakura.sakuraAE.sakuraAE method) tick() (sakura.model_controllers.extractor_controller.ExtractorController method) ToBinary (class in sakura.utils.data_transformations) ToKBins (class in sakura.utils.data_transformations) ToOnehot (class in sakura.utils.data_transformations) ToOrdinal (class in sakura.utils.data_transformations)

ToTensor (class in sakura.utils.data_transformations) train() (sakura.model_controllers.extractor_controller.ExtractorController method) (sakura.sakuraAE.sakuraAE method) train_hybrid() (sakura.sakuraAE.sakuraAE method) train_hybrid_fastload() (sakura.sakuraAE.sakuraAE method) train_story() (sakura.sakuraAE.sakuraAE method)