Technical Documentation

• Python API
  • Datamodel
    • MappingSetDocument
      • MappingSetDocument.mapping_set
      • MappingSetDocument.prefix_map
  • I/O
    • annotate_file()
    • convert_file()
    • extract_iris()
    • filter_file()
    • get_metadata_and_prefix_map()
    • parse_file()
    • run_sql_query()
    • split_file()
    • validate_file()
  • Utils
    • EntityPair
    • KEY_FEATURES
    • MappingSetDataFrame
      • MappingSetDataFrame.clean_context()
      • MappingSetDataFrame.clean_prefix_map()
      • MappingSetDataFrame.from_mapping_set()
      • MappingSetDataFrame.from_mapping_set_document()
      • MappingSetDataFrame.from_mappings()
      • MappingSetDataFrame.merge()
      • MappingSetDataFrame.prefix_map
      • MappingSetDataFrame.remove_mappings()
      • MappingSetDataFrame.standardize_references()
      • MappingSetDataFrame.to_mapping_set()
      • MappingSetDataFrame.to_mapping_set_document()
      • MappingSetDataFrame.to_mappings()
      • MappingSetDataFrame.with_converter()
    • MappingSetDiff
      • MappingSetDiff.combined_dataframe
    • add_default_confidence()
    • are_params_slots()
    • assign_default_confidence()
    • augment_metadata()
    • collapse()
    • compare_dataframes()
    • create_entity()
    • dataframe_to_ptable()
    • deal_with_negation()
    • filter_out_prefixes()
    • filter_prefixes()
    • filter_redundant_rows()
    • get_all_prefixes()
    • get_dict_from_mapping()
    • get_file_extension()
    • get_prefix_from_curie()
    • get_prefixes_used_in_metadata()
    • get_prefixes_used_in_table()
    • get_row_based_on_hierarchy()
    • group_mappings()
    • inject_metadata_into_df()
    • invert_mappings()
    • is_multivalued_slot()
    • merge_msdf()
    • pandas_set_no_silent_downcasting()
    • parse()
    • raise_for_bad_path()
    • reconcile_prefix_and_data()
    • remove_unmatched()
    • safe_compress()
    • sort_df_rows_columns()
    • sort_sssom()
    • to_mapping_set_dataframe()
• SSSOM Submodules
  • sssom.cli module
    • dynamically_generate_sssom_options()
  • sssom.cliques module
    • get_src()
    • group_values()
    • split_into_cliques()
    • summarize_cliques()
    • to_digraph()
  • sssom.context module
    • ConverterHint
    • ensure_converter()
    • get_converter()
  • sssom.io module
  • sssom.parsers module
    • from_alignment_minidom()
    • from_obographs()
    • from_sssom_dataframe()
    • from_sssom_json()
    • from_sssom_rdf()
    • get_parsing_function()
    • parse_alignment_xml()
    • parse_obographs_json()
    • parse_sssom_json()
    • parse_sssom_rdf()
    • parse_sssom_table()
    • split_dataframe()
    • split_dataframe_by_prefix()
    • to_mapping_set_document()
  • sssom.sparql_util module
  • sssom.sssom_datamodel module
  • sssom.sssom_document module
  • sssom.util module
  • sssom.writers module
    • get_writer_function()
    • to_fhir_json()
    • to_json()
    • to_ontoportal_json()
    • to_owl_graph()
    • to_rdf_graph()
    • write_fhir_json()
    • write_json()
    • write_ontoportal_json()
    • write_owl()
    • write_rdf()
    • write_table()
    • write_tables()
  • Module contents
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