ANATOMY_CONFIGURATION

ANATOMY_CONFIGURATION = Configuration(name='SeMRA Anatomy Mappings Database', key='anatomy', description='Supports the analysis of the landscape of anatomy nomenclature resources.', creators=[NormalizedNamableReference(prefix='orcid', identifier='0000-0003-4423-4370', name='Charles Tapley Hoyt')], inputs=[Input(source='biomappings', prefix=None, confidence=1.0, extras={}), Input(source='gilda', prefix=None, confidence=1.0, extras={}), Input(source='pyobo', prefix='uberon', confidence=0.99, extras={}), Input(source='pyobo', prefix='bto', confidence=0.99, extras={}), Input(source='pyobo', prefix='caro', confidence=0.99, extras={}), Input(source='pyobo', prefix='mesh', confidence=0.99, extras={}), Input(source='pyobo', prefix='ncit', confidence=0.99, extras={}), Input(source='pyobo', prefix='umls', confidence=0.99, extras={})], negative_inputs=[Input(source='biomappings', prefix='negative', confidence=1.0, extras={})], priority=['uberon', 'mesh', 'bto', 'caro', 'ncit', 'umls'], mutations=[Mutation(source='uberon', target=None, confidence=0.8, old=NormalizedNamableReference(prefix='oboinowl', identifier='hasDbXref', name='has database cross-reference'), new=NormalizedNamableReference(prefix='skos', identifier='exactMatch', name='exact match')), Mutation(source='bto', target=None, confidence=0.65, old=NormalizedNamableReference(prefix='oboinowl', identifier='hasDbXref', name='has database cross-reference'), new=NormalizedNamableReference(prefix='skos', identifier='exactMatch', name='exact match')), Mutation(source='caro', target=None, confidence=0.8, old=NormalizedNamableReference(prefix='oboinowl', identifier='hasDbXref', name='has database cross-reference'), new=NormalizedNamableReference(prefix='skos', identifier='exactMatch', name='exact match')), Mutation(source='ncit', target=None, confidence=0.7, old=NormalizedNamableReference(prefix='oboinowl', identifier='hasDbXref', name='has database cross-reference'), new=NormalizedNamableReference(prefix='skos', identifier='exactMatch', name='exact match')), Mutation(source='umls', target=None, confidence=0.7, old=NormalizedNamableReference(prefix='oboinowl', identifier='hasDbXref', name='has database cross-reference'), new=NormalizedNamableReference(prefix='skos', identifier='exactMatch', name='exact match'))], subsets={'mesh': [NormalizedNamableReference(prefix='mesh', identifier='D001829', name=None), NormalizedNamableReference(prefix='mesh', identifier='D009141', name=None), NormalizedNamableReference(prefix='mesh', identifier='D004064', name=None), NormalizedNamableReference(prefix='mesh', identifier='D012137', name=None), NormalizedNamableReference(prefix='mesh', identifier='D014566', name=None), NormalizedNamableReference(prefix='mesh', identifier='D004703', name=None), NormalizedNamableReference(prefix='mesh', identifier='D002319', name=None), NormalizedNamableReference(prefix='mesh', identifier='D009420', name=None), NormalizedNamableReference(prefix='mesh', identifier='D012679', name=None), NormalizedNamableReference(prefix='mesh', identifier='D014024', name=None), NormalizedNamableReference(prefix='mesh', identifier='D005441', name=None), NormalizedNamableReference(prefix='mesh', identifier='D000825', name=None), NormalizedNamableReference(prefix='mesh', identifier='D013284', name=None), NormalizedNamableReference(prefix='mesh', identifier='D006424', name=None), NormalizedNamableReference(prefix='mesh', identifier='D004628', name=None), NormalizedNamableReference(prefix='mesh', identifier='D034582', name=None), NormalizedNamableReference(prefix='mesh', identifier='D018514', name=None), NormalizedNamableReference(prefix='mesh', identifier='D056229', name=None), NormalizedNamableReference(prefix='mesh', identifier='D056226', name=None), NormalizedNamableReference(prefix='mesh', identifier='D056224', name=None)], 'ncit': [NormalizedNamableReference(prefix='ncit', identifier='C12219', name=None)], 'umls': [NormalizedNamableReference(prefix='sty', identifier='T024', name=None), NormalizedNamableReference(prefix='sty', identifier='T017', name=None)]}, exclude_pairs=[], remove_prefixes=None, keep_prefixes=['uberon', 'mesh', 'bto', 'caro', 'ncit', 'umls'], post_remove_prefixes=None, post_keep_prefixes=None, remove_imprecise=False, validate_raw=False, directory=PosixPath('/home/docs/.data/semra/case-studies/anatomy'), write_raw_neo4j=False, neo4j_gzip='during', add_labels=False, zenodo_record=11091802)

Configuration for the anatomy mappings database