Preassembly (indra.preassembler)

• Preassembler (indra.preassembler)
  • Preassembler
    • Preassembler.stmts
    • Preassembler.unique_stmts
    • Preassembler.related_stmts
    • Preassembler.ontology
    • Preassembler.add_statements()
    • Preassembler.combine_duplicate_stmts()
    • Preassembler.combine_duplicates()
    • Preassembler.combine_related()
    • Preassembler.find_contradicts()
    • Preassembler.normalize_equivalences()
    • Preassembler.normalize_opposites()
  • find_refinements_for_statement()
  • flatten_evidence()
  • flatten_stmts()
  • render_stmt_graph()
• Refinement filter classes and functions (indra.preassembler.refinement)
  • OntologyRefinementFilter
    • OntologyRefinementFilter.extend()
    • OntologyRefinementFilter.get_related()
    • OntologyRefinementFilter.initialize()
  • RefinementConfirmationFilter
    • RefinementConfirmationFilter.get_related()
  • RefinementFilter
    • RefinementFilter.extend()
    • RefinementFilter.get_less_specifics()
    • RefinementFilter.get_more_specifics()
    • RefinementFilter.get_related()
    • RefinementFilter.initialize()
  • SplitGroupFilter
    • SplitGroupFilter.get_related()
  • get_agent_key()
  • get_relevant_keys()
• Custom preassembly functions (indra.preassembler.custom_preassembly)
  • agent_grounding_matches()
  • agent_name_matches()
  • agent_name_polarity_matches()
  • agent_name_stmt_matches()
  • agent_name_stmt_type_matches()
  • agents_stmt_type_matches()
• Entity grounding mapping and standardization (indra.preassembler.grounding_mapper)
  • Grounding mapping
    • GroundingMapper
    • load_grounding_map()
  • Disambiguation with machine-learned models
    • DisambManager
  • Gilda grounding functions
    • get_gilda_models()
    • get_grounding()
    • ground_agent()
    • ground_statement()
    • ground_statements()
  • Analysis scripts for grounding
    • agent_texts()
    • agent_texts_with_grounding()
    • all_agents()
    • get_agents_with_name()
    • get_sentences_for_agent()
    • protein_map_from_twg()
    • save_base_map()
    • save_sentences()
    • ungrounded_texts()
• Site curation and mapping (indra.preassembler.sitemapper)
  • MappedStatement
  • SiteMapper
    • SiteMapper.map_sites()