tidymut package
Subpackages
- tidymut.cleaners package
- Submodules
- tidymut.cleaners.base_config module
- tidymut.cleaners.basic_cleaners module
- tidymut.cleaners.human_domainome_cleaner module
- tidymut.cleaners.human_domainome_custom_cleaners module
- tidymut.cleaners.k50_cleaner module
- tidymut.cleaners.protein_gym_cleaner module
- tidymut.cleaners.protein_gym_custom_cleaners module
- Module contents
HumanDomainomeCleanerConfigHumanDomainomeCleanerConfig.sequence_dict_pathHumanDomainomeCleanerConfig.header_parserHumanDomainomeCleanerConfig.column_mappingHumanDomainomeCleanerConfig.type_conversionsHumanDomainomeCleanerConfig.drop_na_columnsHumanDomainomeCleanerConfig.is_zero_basedHumanDomainomeCleanerConfig.process_workersHumanDomainomeCleanerConfig.label_columnsHumanDomainomeCleanerConfig.primary_label_columnHumanDomainomeCleanerConfig.column_mappingHumanDomainomeCleanerConfig.drop_na_columnsHumanDomainomeCleanerConfig.header_parser()HumanDomainomeCleanerConfig.is_zero_basedHumanDomainomeCleanerConfig.label_columnsHumanDomainomeCleanerConfig.pipeline_nameHumanDomainomeCleanerConfig.primary_label_columnHumanDomainomeCleanerConfig.process_workersHumanDomainomeCleanerConfig.sequence_dict_pathHumanDomainomeCleanerConfig.type_conversionsHumanDomainomeCleanerConfig.validate()
K50CleanerConfigK50CleanerConfig.column_mappingK50CleanerConfig.filtersK50CleanerConfig.type_conversionsK50CleanerConfig.validation_workersK50CleanerConfig.infer_wt_workersK50CleanerConfig.handle_multiple_wtK50CleanerConfig.label_columnsK50CleanerConfig.primary_label_columnK50CleanerConfig.column_mappingK50CleanerConfig.filtersK50CleanerConfig.handle_multiple_wtK50CleanerConfig.infer_wt_workersK50CleanerConfig.label_columnsK50CleanerConfig.pipeline_nameK50CleanerConfig.primary_label_columnK50CleanerConfig.type_conversionsK50CleanerConfig.validate()K50CleanerConfig.validation_workers
ProteinGymCleanerConfigProteinGymCleanerConfig.column_mappingProteinGymCleanerConfig.filtersProteinGymCleanerConfig.type_conversionsProteinGymCleanerConfig.is_zero_basedProteinGymCleanerConfig.validation_workersProteinGymCleanerConfig.infer_wt_workersProteinGymCleanerConfig.handle_multiple_wtProteinGymCleanerConfig.label_columnsProteinGymCleanerConfig.primary_label_columnProteinGymCleanerConfig.column_mappingProteinGymCleanerConfig.filtersProteinGymCleanerConfig.handle_multiple_wtProteinGymCleanerConfig.infer_wt_workersProteinGymCleanerConfig.label_columnsProteinGymCleanerConfig.pipeline_nameProteinGymCleanerConfig.primary_label_columnProteinGymCleanerConfig.type_conversionsProteinGymCleanerConfig.validate()ProteinGymCleanerConfig.validation_workers
clean_human_domainome_dataset()clean_k50_dataset()clean_protein_gym_dataset()create_human_domainome_cleaner()create_k50_cleaner()create_protein_gym_cleaner()
- Submodules
- tidymut.core package
- Submodules
- Module contents
AminoAcidMutationSetCodonMutationSetCodonTableDNAAlphabetDNASequenceMutationDatasetMutationDataset.add_mutation_set()MutationDataset.add_mutation_sets()MutationDataset.add_reference_sequence()MutationDataset.convert_codon_to_amino_acid_sets()MutationDataset.filter_by_effect_type()MutationDataset.filter_by_mutation_type()MutationDataset.filter_by_reference()MutationDataset.from_dataframe()MutationDataset.get_mutation_set_label()MutationDataset.get_mutation_set_reference()MutationDataset.get_position_coverage()MutationDataset.get_reference_sequence()MutationDataset.get_statistics()MutationDataset.list_reference_sequences()MutationDataset.load()MutationDataset.load_by_reference()MutationDataset.remove_mutation_set()MutationDataset.remove_reference_sequence()MutationDataset.save()MutationDataset.save_by_reference()MutationDataset.set_mutation_set_label()MutationDataset.set_mutation_set_reference()MutationDataset.to_dataframe()MutationDataset.validate_against_references()
PipelinePipeline.add_delayed_step()Pipeline.apply()Pipeline.artifactsPipeline.assign()Pipeline.copy()Pipeline.dataPipeline.delayed_then()Pipeline.execute()Pipeline.filter()Pipeline.get_all_artifacts()Pipeline.get_artifact()Pipeline.get_data()Pipeline.get_delayed_steps_info()Pipeline.get_execution_summary()Pipeline.get_step_result()Pipeline.has_pending_stepsPipeline.load()Pipeline.load_structured_data()Pipeline.peek()Pipeline.remove_delayed_step()Pipeline.save()Pipeline.save_artifacts()Pipeline.save_structured_data()Pipeline.store()Pipeline.structured_dataPipeline.then()Pipeline.transform()Pipeline.validate()Pipeline.visualize_pipeline()
ProteinAlphabetProteinSequenceRNAAlphabetRNASequencecreate_pipeline()multiout_step()pipeline_step()
- tidymut.utils package
Module contents
TidyMut: A Python package for cleaning protein mutation data