came.utils.preprocess.get_homologies

came.utils.preprocess.get_homologies(df_match: DataFrame, vals: Sequence, cols: Sequence[str] | None = None, reverse: bool = False, uniquelist: bool = True, with_null=False)

Get the homologous gene of input ones based on the homology-mappings

Parameters:

• df_match – homologous gene mappings

• vals – the gene names.

• cols – Two column names as [col_from, col_to], specifying the homology mapping direction.

• reverse – whether to reverse the mappings

• uniquelist – whether to remove the duplicates from the results.

• with_null – whether to return those genes without any homologies (copy names)

Returns:

• If uniquelist=True and with_null=False, a single list will be returned;

• otherwise, returns a tuple of two lists (homo, null)