COMPLEX_CONFIGURATION

COMPLEX_CONFIGURATION = Configuration(name='SeMRA Protein Complex Mappings Database', key='complex', description='Analyze the landscape of protein complex nomenclature resources, species-agnostic.', creators=[NormalizedNamableReference(prefix='orcid', identifier='0000-0003-4423-4370', name='Charles Tapley Hoyt')], inputs=[Input(source='gilda', prefix=None, confidence=1.0, extras={}), Input(source='biomappings', prefix=None, confidence=1.0, extras={}), Input(source='pyobo', prefix='fplx', confidence=0.99, extras={}), Input(source='custom', prefix='fplx', confidence=0.99, extras={}), Input(source='pyobo', prefix='complexportal', confidence=0.99, extras={}), Input(source='pyobo', prefix='intact', confidence=0.99, extras={}), Input(source='pyobo', prefix='go', confidence=0.99, extras={}), Input(source='wikidata', prefix='complexportal', confidence=0.99, extras={}), Input(source='wikidata', prefix='reactome', confidence=0.99, extras={})], negative_inputs=[Input(source='biomappings', prefix='negative', confidence=1.0, extras={})], priority=['complexportal', 'fplx', 'go', 'chembl.target', 'wikidata', 'scomp', 'signor', 'intact'], mutations=[Mutation(source='go', target=None, confidence=0.95, old=NormalizedNamableReference(prefix='oboinowl', identifier='hasDbXref', name='has database cross-reference'), new=NormalizedNamableReference(prefix='skos', identifier='exactMatch', name='exact match'))], subsets={'go': [NormalizedNamableReference(prefix='go', identifier='0032991', name=None)], 'chembl.target': [NormalizedNamableReference(prefix='obo', identifier='chembl.target#protein-complex', name=None), NormalizedNamableReference(prefix='obo', identifier='chembl.target#protein-complex-group', name=None), NormalizedNamableReference(prefix='obo', identifier='chembl.target#protein-nucleic-acid-complex', name=None)]}, exclude_pairs=[], remove_prefixes=None, keep_prefixes=None, post_remove_prefixes=None, post_keep_prefixes=['complexportal', 'fplx', 'go', 'chembl.target', 'wikidata', 'scomp', 'signor', 'intact'], remove_imprecise=False, validate_raw=False, directory=PosixPath('/home/docs/.data/semra/case-studies/complex'), write_raw_neo4j=False, neo4j_gzip='during', add_labels=True, zenodo_record=11091421)

Configuration for the protein complex mappings database