comparison multicov.py @ 6:7c4feda2d9c7 draft

"planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/probecoverage commit 62a8b073b9ac98b0231641e5266768e7f8b80b89"

5:2ec6529e555d

            continue
        fields = line[:-1].split('\t')
        chr = fields[0]
        start = fields[1]
        end = fields[2]
        coverage = bam_object.count_coverage(reference=chr,
                                             start=int(start)-1,
                                             end=int(end),
                                             quality_threshold=quality)
        """ Add the 4 coverage values """
        coverage = [sum(x) for x in zip(*coverage)]
        coverage_column.append(numpy.mean(coverage))
    bed_object.close()

6:7c4feda2d9c7

            continue
        fields = line[:-1].split('\t')
        chr = fields[0]
        start = fields[1]
        end = fields[2]
        coverage = bam_object.count_coverage(contig=chr,
                                             start=int(start)-1,
                                             stop=int(end),
                                             quality_threshold=quality)
        """ Add the 4 coverage values """
        coverage = [sum(x) for x in zip(*coverage)]
        coverage_column.append(numpy.mean(coverage))
    bed_object.close()