cyclient.idmapper.map_column

cyclient.idmapper.map_column(self, only_use_one=None, source_column=None, species=None, target_selection= None, verbose=False)

Uses the BridgeDB service to look up analogous identifiers from a wide selection of other databases

  • only_use_one (string, optional) When multiple identifiers can be mapped from a single term, this forces a singular result
  • source_column (string) Specifies the column nmae where the source identifiers are located = ['']
  • source_selection (string) Specifies the database describing the existing identifiers = ['']
  • species (string, optional) The combined common or latin name of the species to which the identifiers apply = ['Human (Homo sapiens)', 'Mouse (Mus musculus)', 'Rat (Rattus norvegicus)', 'Frog (Xenopus tropicalis)', 'Zebra fish (Danio rerio)', 'Fruit fly (Drosophila melanogaster)', 'Mosquito (Anopheles gambiae)', 'Arabidopsis thaliana (Arabidopsis thaliana)', 'Yeast (Saccharomyces cerevisiae)', 'E. coli (Escherichia coli)', 'Tuberculosis (Mycobacterium tuberculosis)', 'Worm (Caenorhabditis elegans)']
  • target_selection (string) Specifies the database identifiers to be looked up = ['']

  • verbose print more

  • returns eg. { "new column": "SGD " }