UniProtGOA

class openomics.database.ontology.UniProtGOA(path='ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/', species='HUMAN', file_resources=None, index_col='DB_Object_ID', keys=None, col_rename={'DB_Object_ID': 'protein_id', 'DB_Object_Symbol': 'gene_name', 'GO_ID': 'go_id', 'Taxon_ID': 'species_id'}, blocksize=None, **kwargs)

Bases: openomics.database.ontology.GeneOntology

Loads the GeneOntology database from https://www.ebi.ac.uk/GOA/ .

Default path: “ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/” . Default file_resources: {

“goa_uniprot_all.gaf”: “goa_uniprot_all.gaf.gz”,

}

Attributes Summary

COLUMNS_RENAME_DICT

Attributes Documentation

COLUMNS_RENAME_DICT = {'DB_Object_ID': 'protein_id', 'DB_Object_Symbol': 'gene_name', 'GO_ID': 'go_id', 'Taxon_ID': 'species_id'}