BioCompass.py 文件源码

def antiSMASH_to_dataFrame(content):
    """ Extract an antiSMASH file as a pandas.DataFrame
    """
    parsed = parse_antiSMASH(content)
    output = pd.DataFrame()
    for cs in parsed['SignificantHits']:
        clusterSubject = parsed['SignificantHits'][cs].copy()
        df = pd.merge(
                pd.DataFrame(clusterSubject['BlastHit']),
                pd.DataFrame(clusterSubject['TableGenes']),
                on='subject_gene', how='outer')

        del(clusterSubject['BlastHit'])
        del(clusterSubject['TableGenes'])

        for v in clusterSubject:
            df[v] = clusterSubject[v]
        output = output.append(df, ignore_index=True)

    return output