1fe319ef49168c2c7c8d10a7c426c1414521d164,cnvlib/tabio/genepred.py,,read_refflat,#Any#Any#Any#,80

Before Change

        dframe["start"] -= 1

    // NB: same gene name can appear on alt. contigs
    dframe = (dframe.groupby(by=["chromosome", "strand", "gene"],
                             as_index=False, group_keys=False, sort=False)
              .apply(_merge_overlapping))
    return dframe


def _merge_overlapping(dframe):

After Change

        dframe["start"] = dframe["start"].astype("int")
        dframe["end"] = dframe["end"].astype("int")

    return (dframe.assign(start=dframe.start - 1)
            .sort_values(["chromosome", "start", "end"])
            .reset_index(drop=True))


def _split_commas(field):
    return field.rstrip(",").split(",")

Instances