kg_microbe

• kg_microbe package
  • Subpackages
    • kg_microbe.merge_utils package
      • Submodules
      • kg_microbe.merge_utils.artifact_manifest module
      • kg_microbe.merge_utils.external_node_closure module
      • kg_microbe.merge_utils.invariants module
      • kg_microbe.merge_utils.kgx_source module
      • kg_microbe.merge_utils.local_context module
      • kg_microbe.merge_utils.merge_kg module
      • kg_microbe.merge_utils.progress module
      • kg_microbe.merge_utils.source_admission module
      • kg_microbe.merge_utils.source_freshness module
      • kg_microbe.merge_utils.stats_provenance module
      • Module contents
    • kg_microbe.query_utils package
      • Submodules
      • kg_microbe.query_utils.duckdb_loader module
      • kg_microbe.query_utils.organism_queries module
      • kg_microbe.query_utils.utils module
      • Module contents
    • kg_microbe.transform_utils package
      • Subpackages
      • Submodules
      • kg_microbe.transform_utils.constants module
      • kg_microbe.transform_utils.transform module
      • Module contents
    • kg_microbe.utils package
      • Submodules
      • kg_microbe.utils.atomic_io module
      • kg_microbe.utils.biolink_hierarchy module
      • kg_microbe.utils.biolink_model module
      • kg_microbe.utils.cas module
      • kg_microbe.utils.chemical_mapping_utils module
      • kg_microbe.utils.consolidate_categories module
      • kg_microbe.utils.download_bacdive module
      • kg_microbe.utils.download_manifest module
      • kg_microbe.utils.download_utils module
      • kg_microbe.utils.dummy_tqdm module
      • kg_microbe.utils.external_identifiers module
      • kg_microbe.utils.fix_list_representations module
      • kg_microbe.utils.foodon_classification module
      • kg_microbe.utils.go_authority module
      • kg_microbe.utils.graph_canonicalization module
      • kg_microbe.utils.graph_schema module
      • kg_microbe.utils.ingredient_bundle module
      • kg_microbe.utils.ingredient_bundle_contract module
      • kg_microbe.utils.ingredient_identity module
      • kg_microbe.utils.ingredient_kgx module
      • kg_microbe.utils.ingredient_scope module
      • kg_microbe.utils.isolation_source_mapping_utils module
      • kg_microbe.utils.lpsn_utils module
      • kg_microbe.utils.mapping_file_utils module
      • kg_microbe.utils.mediadive_bulk_download module
      • kg_microbe.utils.metpo_liveness module
      • kg_microbe.utils.metpo_predicates module
      • kg_microbe.utils.microbial_trait_mappings module
      • kg_microbe.utils.ner_utils module
      • kg_microbe.utils.oak_utils module
      • kg_microbe.utils.ontology_resolution module
      • kg_microbe.utils.ontology_utils module
      • kg_microbe.utils.optional_consumed_inputs module
      • kg_microbe.utils.pandas_utils module
      • kg_microbe.utils.parse_taxon_rank module
      • kg_microbe.utils.postprocess_artifacts module
      • kg_microbe.utils.provenance module
      • kg_microbe.utils.review_claims module
      • kg_microbe.utils.robot_utils module
      • kg_microbe.utils.sanitize_curies module
      • kg_microbe.utils.source_finalization module
      • kg_microbe.utils.sssom_identity_policy module
      • kg_microbe.utils.string_coding module
      • kg_microbe.utils.stub_curie_collection module
      • kg_microbe.utils.transform_fingerprint module
      • kg_microbe.utils.trembl_utils module
      • kg_microbe.utils.tsv_io module
      • kg_microbe.utils.unipathways_utils module
      • kg_microbe.utils.uniprot_utils module
      • kg_microbe.utils.validation_utils module
      • Module contents
  • Submodules
  • kg_microbe.bactotraits_to_mongo module
    • build_nested_dict()
    • clean_field_name()
    • create_field_path()
    • forward_fill_headers()
    • main()
    • merge_dicts()
    • parse_bactotraits_to_mongo()
    • parse_value()
    • split_list_values()
  • kg_microbe.download module
    • UnknownDownloadTagError
    • download()
  • kg_microbe.query module
    • parse_query_yaml()
    • result_dict_to_tsv()
    • run_query()
  • kg_microbe.run module
  • kg_microbe.transform module
    • LazyTransform
      • LazyTransform.transform_class
    • TransformBatchError
    • transform()
  • Module contents
    • download()