Index

_

__init__() (AnnotatedDataset method) (Augment method) (AugmentByReversing method) (AugmentTensor method) (Canonicalization method) (Compose method) (ConcatKeyDataset method) (DiscardLowercase method) (DistributionalDataset method) (DrugAffinityDataset method) (DrugSensitivityDataset method) (DrugSensitivityDoseDataset method) (ExtractFromDict method) (GeneExpressionDataset method) (LeftPadding method) (ListToTensor method) (MutateResidues method) (PairedSetMatchingDataset method) (PermutedSetMatchingDataset method) (PolymerTokenizer method) (PolymerTokenizerDataset method) (ProteinAugmentFlipSubstrs method) (ProteinAugmentSwapSubstrs method) (ProteinFeatureLanguage method) (ProteinLanguage method) (ProteinProteinInteractionDataset method) (ProteinSequenceDataset method) (RemoveIsomery method) (ReplaceByFullProteinSequence method) (SELFIESLanguage method) (SequenceToTokenIndexes method) (SetMatchingDataset method) (SMILESDataset method) (SMILESLanguage method) (SMILESTokenizer method) (SMILESTokenizerDataset method) (SMILESToMorganFingerprints method) (SMILESToTokenIndexes method) (StartStop method) (TestFileContent method) (ToTensor method) (WrapperCDist method) (WrapperKLDiv method)

A

AA_FEAT (in module pytoda.proteins.processing) AA_PROPERTIES_NUM (in module pytoda.proteins.processing) aas_to_smiles() (in module pytoda.proteins.utils) add_dataset() (SMILESLanguage method) add_file() (ProteinLanguage method) add_sequence() (ProteinLanguage method) add_smi() (SMILESLanguage method)

add_smiles() (SMILESLanguage method) add_smis() (SMILESLanguage method) add_token() (SMILESLanguage method) AnnotatedDataset (class in pytoda.datasets.annotated_dataset) assertListedEqual() (TestBaseDatasets method) Augment (class in pytoda.smiles.transforms) AugmentByReversing (class in pytoda.transforms) AugmentTensor (class in pytoda.smiles.transforms)

C

Canonicalization (class in pytoda.smiles.transforms) check_CHEMBL602() (TestChangeIndexingReturn method) Compose (class in pytoda.transforms) compose_encoding_transforms() (in module pytoda.smiles.transforms) compose_smiles_transforms() (in module pytoda.smiles.transforms) concatenate_file_based_datasets() (in module pytoda.datasets.utils.utils)

ConcatKeyDataset (class in pytoda.datasets.base_dataset) constant_value_tensor() (in module pytoda.datasets.utils.background_tensors) count_file_lines() (in module pytoda.files) csv_data_splitter() (in module pytoda.data_splitter) cumulative_sizes (ConcatKeyDataset attribute) (TransparentConcatDataset attribute)

D

DataFrameDataset (class in pytoda.datasets.dataframe_dataset) dataset (PairedSetMatchingDataset attribute) (PermutedSetMatchingDataset attribute) (SetMatchingDataset attribute) DatasetDelegator (class in pytoda.datasets.base_dataset) datasets (ConcatKeyDataset attribute) (TransparentConcatDataset attribute) delegate_kwargs() (in module pytoda.types) Delegating (class in pytoda.datasets.tests.test_base_dataset)

device_warning() (in module pytoda.warnings) dims (TestBaseDatasets attribute) DiscardLowercase (class in pytoda.transforms) DistributionalDataset (class in pytoda.datasets.distributional_dataset) DrugAffinityDataset (class in pytoda.datasets.drug_affinity_dataset) DrugSensitivityDataset (class in pytoda.datasets.drug_sensitivity_dataset) DrugSensitivityDoseDataset (class in pytoda.datasets.drug_sensitivity_dose_dataset) dump() (ProteinLanguage static method) (SMILESLanguage static method)

E

extract_active_sites_info() (in module pytoda.proteins.transforms)

ExtractFromDict (class in pytoda.transforms)

F

filename() (TestFileContent property) filter_invalid_smi() (in module pytoda.preprocessing.smi) find_undesired_smiles() (in module pytoda.preprocessing.smi)

find_undesired_smiles_files() (in module pytoda.preprocessing.smi) forward() (WrapperCDist method) (WrapperKLDiv method) from_pretrained() (SMILESLanguage class method)

G

GeneExpressionDataset (class in pytoda.datasets.gene_expression_dataset) get_index() (ConcatKeyDataset method) (DataFrameDataset method) (Indexed method) (KeyDataset method) get_index_pair() (TransparentConcatDataset method) get_item_from_key() (AnnotatedDataset method) (ConcatKeyDataset method) (DataFrameDataset method) (DatasetDelegator method) (KeyDataset method)

get_key() (ConcatKeyDataset method) (DataFrameDataset method) (Indexed method) (KeyDataset method) get_key_pair() (ConcatKeyDataset method) get_matching_set() (PairedSetMatchingDataset method) (PermutedSetMatchingDataset method) (SetMatchingDataset method) get_smiles_from_pubchem() (in module pytoda.preprocessing.crawlers) get_subsampling_indexes() (in module pytoda.datasets.set_matching_dataset)

H

has_duplicate_keys() (KeyDataset property)

hungarian_assignment() (in module pytoda.datasets.set_matching_dataset)

I

Indexed (class in pytoda.datasets.tests.test_base_dataset) indexed() (in module pytoda.datasets.utils.utils)

IndexesToSequenceError is_pubchem() (in module pytoda.preprocessing.crawlers)

K

Kekulize (class in pytoda.smiles.transforms) KeyDataset (class in pytoda.datasets.base_dataset) keyed() (in module pytoda.datasets.utils.utils)

keys() (ConcatKeyDataset method) (DataFrameDataset method) (KeyDataset method) kmer_smiles_tokenizer() (in module pytoda.smiles.processing)

L

LeftPadding (class in pytoda.transforms) length (TestBaseDatasets attribute) ListToTensor (class in pytoda.transforms)

load() (ProteinLanguage static method) (SMILESLanguage static method) load_vocabulary() (SMILESLanguage method)

M

method() (ProteinFeatureLanguage property) (ProteinLanguage property) module pytoda pytoda.data_splitter pytoda.datasets pytoda.datasets.annotated_dataset pytoda.datasets.base_dataset pytoda.datasets.dataframe_dataset pytoda.datasets.distributional_dataset pytoda.datasets.drug_affinity_dataset pytoda.datasets.drug_sensitivity_dataset pytoda.datasets.drug_sensitivity_dose_dataset pytoda.datasets.gene_expression_dataset pytoda.datasets.polymer_dataset pytoda.datasets.protein_protein_interaction_dataset pytoda.datasets.protein_sequence_dataset pytoda.datasets.set_matching_dataset pytoda.datasets.smiles_dataset pytoda.datasets.tests pytoda.datasets.tests.test_annotated_dataset pytoda.datasets.tests.test_base_dataset pytoda.datasets.tests.test_distributional_dataset pytoda.datasets.tests.test_drug_affinity_dataset pytoda.datasets.tests.test_drug_sensitivity_dataset pytoda.datasets.tests.test_drug_sensitivity_dose_dataset pytoda.datasets.tests.test_gene_expression_dataset pytoda.datasets.tests.test_polymer_dataset pytoda.datasets.tests.test_protein_protein_interaction_dataset pytoda.datasets.tests.test_protein_sequence_dataset pytoda.datasets.tests.test_set_matching_dataset pytoda.datasets.tests.test_smiles_datasets pytoda.datasets.utils pytoda.datasets.utils.background_tensors pytoda.datasets.utils.factories pytoda.datasets.utils.utils pytoda.datasets.utils.wrappers pytoda.files pytoda.preprocessing pytoda.preprocessing.crawlers pytoda.preprocessing.smi pytoda.preprocessing.tests pytoda.preprocessing.tests.test_crawlers pytoda.preprocessing.tests.test_smi pytoda.proteins pytoda.proteins.processing pytoda.proteins.protein_feature_language pytoda.proteins.protein_language pytoda.proteins.tests pytoda.proteins.tests.test_processing pytoda.proteins.tests.test_protein_feature_language pytoda.proteins.tests.test_protein_language pytoda.proteins.tests.test_utils pytoda.proteins.transforms pytoda.proteins.utils pytoda.smiles pytoda.smiles.metadata pytoda.smiles.polymer_language pytoda.smiles.processing pytoda.smiles.smiles_language pytoda.smiles.tests pytoda.smiles.tests.test_polymer_language pytoda.smiles.tests.test_processing pytoda.smiles.tests.test_smiles_language pytoda.smiles.tests.test_transforms pytoda.smiles.transforms pytoda.tests pytoda.tests.test_data_splitter pytoda.tests.test_files pytoda.tests.test_transforms pytoda.tests.utils pytoda.transforms pytoda.types pytoda.warnings

MutateResidues (class in pytoda.proteins.transforms)

N

NotKekulize (class in pytoda.smiles.transforms)

P

pad_item() (in module pytoda.datasets.utils.utils) PairedSetMatchingDataset (class in pytoda.datasets.set_matching_dataset) permutation() (PairedSetMatchingDataset property) (PermutedSetMatchingDataset property) (SetMatchingDataset property) PermutedSetMatchingDataset (class in pytoda.datasets.set_matching_dataset) PolymerTokenizer (class in pytoda.smiles.polymer_language) PolymerTokenizerDataset (class in pytoda.datasets.polymer_dataset) protein_sequence_dataset() (in module pytoda.datasets.protein_sequence_dataset) ProteinAugmentFlipSubstrs (class in pytoda.proteins.transforms) ProteinAugmentSwapSubstrs (class in pytoda.proteins.transforms) ProteinFeatureLanguage (class in pytoda.proteins.protein_feature_language) ProteinLanguage (class in pytoda.proteins.protein_language) ProteinProteinInteractionDataset (class in pytoda.datasets.protein_protein_interaction_dataset) ProteinSequenceDataset (class in pytoda.datasets.protein_sequence_dataset) pytoda module pytoda.data_splitter module pytoda.datasets module pytoda.datasets.annotated_dataset module pytoda.datasets.base_dataset module pytoda.datasets.dataframe_dataset module pytoda.datasets.distributional_dataset module pytoda.datasets.drug_affinity_dataset module pytoda.datasets.drug_sensitivity_dataset module pytoda.datasets.drug_sensitivity_dose_dataset module pytoda.datasets.gene_expression_dataset module pytoda.datasets.polymer_dataset module pytoda.datasets.protein_protein_interaction_dataset module pytoda.datasets.protein_sequence_dataset module pytoda.datasets.set_matching_dataset module pytoda.datasets.smiles_dataset module pytoda.datasets.tests module pytoda.datasets.tests.test_annotated_dataset module pytoda.datasets.tests.test_base_dataset module pytoda.datasets.tests.test_distributional_dataset module pytoda.datasets.tests.test_drug_affinity_dataset module pytoda.datasets.tests.test_drug_sensitivity_dataset module pytoda.datasets.tests.test_drug_sensitivity_dose_dataset module pytoda.datasets.tests.test_gene_expression_dataset module pytoda.datasets.tests.test_polymer_dataset module pytoda.datasets.tests.test_protein_protein_interaction_dataset module pytoda.datasets.tests.test_protein_sequence_dataset module pytoda.datasets.tests.test_set_matching_dataset module pytoda.datasets.tests.test_smiles_datasets module pytoda.datasets.utils module pytoda.datasets.utils.background_tensors module pytoda.datasets.utils.factories module

pytoda.datasets.utils.utils module pytoda.datasets.utils.wrappers module pytoda.files module pytoda.preprocessing module pytoda.preprocessing.crawlers module pytoda.preprocessing.smi module pytoda.preprocessing.tests module pytoda.preprocessing.tests.test_crawlers module pytoda.preprocessing.tests.test_smi module pytoda.proteins module pytoda.proteins.processing module pytoda.proteins.protein_feature_language module pytoda.proteins.protein_language module pytoda.proteins.tests module pytoda.proteins.tests.test_processing module pytoda.proteins.tests.test_protein_feature_language module pytoda.proteins.tests.test_protein_language module pytoda.proteins.tests.test_utils module pytoda.proteins.transforms module pytoda.proteins.utils module pytoda.smiles module pytoda.smiles.metadata module pytoda.smiles.polymer_language module pytoda.smiles.processing module pytoda.smiles.smiles_language module pytoda.smiles.tests module pytoda.smiles.tests.test_polymer_language module pytoda.smiles.tests.test_processing module pytoda.smiles.tests.test_smiles_language module pytoda.smiles.tests.test_transforms module pytoda.smiles.transforms module pytoda.tests module pytoda.tests.test_data_splitter module pytoda.tests.test_files module pytoda.tests.test_transforms module pytoda.tests.utils module pytoda.transforms module pytoda.types module pytoda.warnings module

Q

query_pubchem() (in module pytoda.preprocessing.crawlers)

R

random_data() (TestBaseDatasets method) Randomize (class in pytoda.transforms) range_tensor() (in module pytoda.datasets.utils.background_tensors) read_smi() (in module pytoda.files) REAL_AAS (in module pytoda.proteins.processing)

remove_pubchem_smiles() (in module pytoda.preprocessing.crawlers) RemoveIsomery (class in pytoda.smiles.transforms) ReplaceByFullProteinSequence (class in pytoda.proteins.transforms) reset_initial_transforms() (PolymerTokenizer method) (SMILESTokenizer method)

S

save() (ProteinLanguage method) (SMILESLanguage method) save_pretrained() (SMILESLanguage method) save_vocabulary() (SMILESLanguage method) Selfies (class in pytoda.smiles.transforms) selfies_to_smiles() (SMILESLanguage method) SELFIESLanguage (class in pytoda.smiles.smiles_language) sequence_to_token_indexes() (ProteinLanguage method) sequence_to_token_indexes_generator() (ProteinLanguage method) SequenceToTokenIndexes (class in pytoda.proteins.transforms) set_encoding_transforms() (PolymerTokenizer method) (SMILESTokenizer method) set_max_padding() (SMILESTokenizer method) set_smiles_transforms() (PolymerTokenizer method) (SMILESTokenizer method) SetMatchingDataset (class in pytoda.datasets.set_matching_dataset) setUp() (TestAnnotatedDataset method) (TestBaseDatasets method) (TestChangeIndexingReturn method) (TestDrugAffinityDatasetEagerBackend method) (TestDrugAffinityDatasetLazyBackend method) (TestDrugSensitivityDatasetEagerBackend method) (TestDrugSensitivityDatasetLazyBackend method) (TestDrugSensitivityDoseDataset method) (TestGeneExpressionDatasetEagerBackend method) (TestGeneExpressionDatasetLazyBackend method) (TestProteinSequenceDatasetEagerBackend method) (TestProteinSequenceDatasetLazyBackend method) (TestSMILESTokenizerDatasetEager method) (TestSMILESTokenizerDatasetLazy method)

setup_dict() (ProteinLanguage method) setup_sequence_augmentation() (ProteinSequenceDataset method) setup_vocab() (SMILESLanguage method) sizeof_fmt() (in module pytoda.datasets.utils.utils) smiles_to_selfies() (SMILESLanguage method) smiles_to_token_indexes() (PolymerTokenizer method) (SMILESLanguage method) SMILESDataset (class in pytoda.datasets.smiles_dataset) SMILESLanguage (class in pytoda.smiles.smiles_language) SMILESTokenizer (class in pytoda.smiles.smiles_language) SMILESTokenizerDataset (class in pytoda.datasets.smiles_dataset) SMILESToMorganFingerprints (class in pytoda.smiles.transforms) SMILESToTokenIndexes (class in pytoda.smiles.transforms) spe_smiles_tokenizer() (in module pytoda.smiles.processing) split_selfies() (in module pytoda.smiles.processing) StartStop (class in pytoda.transforms) StochasticItems (class in pytoda.datasets.distributional_dataset)

T

tensor_to_indexes() (SMILESLanguage static method) test___getitem__() (TestAnnotatedDataset method) (TestBaseDatasets method) (TestDrugAffinityDatasetEagerBackend method) (TestDrugSensitivityDatasetEagerBackend method) (TestDrugSensitivityDoseDataset method) (TestGeneExpressionDatasetEagerBackend method) (TestPolymerTokenizerDataset method) (TestProteinProteinInteractionDataset method) (TestProteinSequenceDatasetEagerBackend method) (TestSMILESTokenizerDatasetEager method) test___getitem___from_indexed_annotation() (TestAnnotatedDataset method) test___getitem___with_annotation_column_names() (TestPolymerTokenizerDataset method) test___len__() (TestBaseDatasets method) (TestDrugAffinityDatasetEagerBackend method) (TestDrugSensitivityDatasetEagerBackend method) (TestDrugSensitivityDoseDataset method) (TestGeneExpressionDatasetEagerBackend method) (TestPolymerTokenizerDataset method) (TestProteinProteinInteractionDataset method) (TestSMILESTokenizerDatasetEager method) test___len__fasta() (TestProteinSequenceDatasetEagerBackend method) (TestProteinSequenceDatasetLazyBackend method) test___len__smi() (TestProteinSequenceDatasetEagerBackend method) test__getitem__() (TestDistributionalDataset method) test__getitem__mutating_utils() (TestBaseDatasets method) test__key_availability() (TestProcessing method) test__len__() (TestDistributionalDataset method) test__length_equal() (TestProcessing method) test__update_language_dictionaries_with_tokens() (TestPolymerTokenizer method) (TestSmilesLanguage method) test__update_max_token_sequence_length() (TestPolymerTokenizer method) (TestProteinFeatureLanguage method) (TestProteinLanguage method) (TestSmilesLanguage method) test_aas_to_smiles() (TestUtils method) test_add_dataset() (TestSelfiesLanguage method) test_add_file() (TestProteinFeatureLanguage method) (TestProteinLanguage method) test_add_smi() (TestPolymerTokenizer method) (TestSmilesLanguage method) test_add_smiles() (TestPolymerTokenizer method) (TestSmilesLanguage method) test_add_smis() (TestPolymerTokenizer method) (TestSmilesLanguage method) test_add_token() (TestSmilesLanguage method) test_all_base_for_indexed_methods() (TestAnnotatedDataset method) (TestGeneExpressionDatasetEagerBackend method) (TestProteinSequenceDatasetEagerBackend method) (TestSMILESTokenizerDatasetEager method) test_all_base_for_indexed_methods_and_copy() (TestBaseDatasets method) test_augment_by_reversing() (TestTransforms method) test_augment_tensor() (TestTransforms method) test_compose() (TestTransforms method) test_count_file_lines() (TestFiles method) test_data_loader() (TestBaseDatasets method) (TestDrugAffinityDatasetEagerBackend method) (TestDrugSensitivityDatasetEagerBackend method) (TestDrugSensitivityDoseDataset method) (TestGeneExpressionDatasetEagerBackend method) (TestProteinSequenceDatasetEagerBackend method) (TestSetMatchingDataset method) (TestSMILESTokenizerDatasetEager method) test_data_splitter() (TestDataSplitter method) test_delegation_dir() (TestBaseDatasets method) test_filter_invalid_smi() (TestSmi method) test_find_undesired_smiles_files() (TestSmi method) test_get_smiles_from_pubchem() (TestCrawlers method) test_kekulize() (TestTransforms method) test_kmer_smiles_tokenizer() (TestProcessing method) test_kwargs_read_smi() (TestSMILESTokenizerDatasetEager method) test_left_padding() (TestTransforms method) test_list_to_tensor() (TestTransforms method) test_multi_processing() (TestSmilesLanguage method) test_non_kekulize() (TestTransforms method) test_package_tokenizer() (TestProcessing method)

test_paired_set_matching_dataset() (TestSetMatchingDataset method) test_permuted_set_matching_dataset() (TestSetMatchingDataset method) test_pretrained__getitem__() (TestSMILESTokenizerDatasetEager method) test_processing_parameters_minmax() (TestGeneExpressionDatasetEagerBackend method) test_processing_parameters_standardize_reindex() (TestGeneExpressionDatasetEagerBackend method) test_query_pubchem() (TestCrawlers method) test_read_smi() (TestFiles method) test_remove_isomery() (TestTransforms method) test_remove_pubchem_smiles() (TestCrawlers method) test_return_integer_index() (TestChangeIndexingReturn method) test_return_key() (TestChangeIndexingReturn method) test_return_key_index_stacked() (TestChangeIndexingReturn method) test_selfies() (TestTransforms method) test_selfies_split() (TestProcessing method) test_sequence_to_token_indexes() (TestProteinFeatureLanguage method) (TestProteinLanguage method) test_smiles_params() (TestPolymerTokenizerDataset method) test_smiles_roundtrip() (TestSmilesLanguage method) test_smiles_to_selfies() (TestSmilesLanguage method) test_smiles_to_token_indexes() (TestPolymerTokenizer method) (TestSmilesLanguage method) test_spe_smiles_tokenizer() (TestProcessing method) test_to_tensor() (TestTransforms method) test_token_indexes_to_sequence() (TestProteinFeatureLanguage method) (TestProteinLanguage method) test_token_indexes_to_smiles() (TestPolymerTokenizer method) (TestSmilesLanguage method) test_tokenize_selfies_match() (TestProcessing method) test_tokenize_smiles() (TestProcessing method) test_transform_changes() (TestSmilesLanguage method) test_vocab_roundtrip() (TestPolymerTokenizer method) (TestSmilesLanguage method) TestAnnotatedDataset (class in pytoda.datasets.tests.test_annotated_dataset) TestBaseDatasets (class in pytoda.datasets.tests.test_base_dataset) TestChangeIndexingReturn (class in pytoda.datasets.tests.test_annotated_dataset) TestCrawlers (class in pytoda.preprocessing.tests.test_crawlers) TestDataSplitter (class in pytoda.tests.test_data_splitter) TestDistributionalDataset (class in pytoda.datasets.tests.test_distributional_dataset) TestDrugAffinityDatasetEagerBackend (class in pytoda.datasets.tests.test_drug_affinity_dataset) TestDrugAffinityDatasetLazyBackend (class in pytoda.datasets.tests.test_drug_affinity_dataset) TestDrugSensitivityDatasetEagerBackend (class in pytoda.datasets.tests.test_drug_sensitivity_dataset) TestDrugSensitivityDatasetLazyBackend (class in pytoda.datasets.tests.test_drug_sensitivity_dataset) TestDrugSensitivityDoseDataset (class in pytoda.datasets.tests.test_drug_sensitivity_dose_dataset) TestFileContent (class in pytoda.tests.utils) TestFiles (class in pytoda.tests.test_files) TestGeneExpressionDatasetEagerBackend (class in pytoda.datasets.tests.test_gene_expression_dataset) TestGeneExpressionDatasetLazyBackend (class in pytoda.datasets.tests.test_gene_expression_dataset) TestPolymerTokenizer (class in pytoda.smiles.tests.test_polymer_language) TestPolymerTokenizerDataset (class in pytoda.datasets.tests.test_polymer_dataset) TestProcessing (class in pytoda.proteins.tests.test_processing) (class in pytoda.smiles.tests.test_processing) TestProteinFeatureLanguage (class in pytoda.proteins.tests.test_protein_feature_language) TestProteinLanguage (class in pytoda.proteins.tests.test_protein_language) TestProteinProteinInteractionDataset (class in pytoda.datasets.tests.test_protein_protein_interaction_dataset) TestProteinSequenceDatasetEagerBackend (class in pytoda.datasets.tests.test_protein_sequence_dataset) TestProteinSequenceDatasetLazyBackend (class in pytoda.datasets.tests.test_protein_sequence_dataset) TestSelfiesLanguage (class in pytoda.smiles.tests.test_smiles_language) TestSetMatchingDataset (class in pytoda.datasets.tests.test_set_matching_dataset) TestSmi (class in pytoda.preprocessing.tests.test_smi) TestSmilesLanguage (class in pytoda.smiles.tests.test_smiles_language) TestSMILESTokenizerDatasetEager (class in pytoda.datasets.tests.test_smiles_datasets) TestSMILESTokenizerDatasetLazy (class in pytoda.datasets.tests.test_smiles_datasets) TestTransforms (class in pytoda.smiles.tests.test_transforms) (class in pytoda.tests.test_transforms) TestUtils (class in pytoda.proteins.tests.test_utils) token_indexes_to_sequence() (ProteinFeatureLanguage method) (ProteinLanguage method) token_indexes_to_sequence_raise() (in module pytoda.proteins.protein_feature_language) token_indexes_to_smiles() (SMILESLanguage method) tokenize_selfies() (in module pytoda.smiles.processing) tokenize_smiles() (in module pytoda.smiles.processing) ToTensor (class in pytoda.transforms) ToUpperCase (class in pytoda.transforms) training (WrapperCDist attribute) (WrapperKLDiv attribute) Transform (class in pytoda.transforms) TransparentConcatDataset (class in pytoda.datasets.base_dataset)

U

unknown_token (ProteinLanguage attribute) UnknownMaxLengthError

update_entity() (PolymerTokenizer method) update_smiles_language() (AugmentTensor method)

V

verify_aligned_info() (in module pytoda.proteins.transforms)

vocab_files_names (SMILESLanguage attribute)

W

WrapperCDist (class in pytoda.datasets.utils.wrappers)

WrapperKLDiv (class in pytoda.datasets.utils.wrappers)