1aca5ab39c60307f7bfbee20474046d74badebd3,cnvlib/coverage.py,,interval_coverages,#Any#Any#Any#,17

Before Change


    else:
        echo("(Couldn"t calculate total number of mapped reads)")

    return list(cna_rows)


def interval_coverages_count(bed_fname, bam_fname):
    Calculate log2 coverages in the BAM file at each interval.

After Change


    else:
        echo("(Couldn"t calculate total number of mapped reads)")

    return CNA.from_rows(fbase(bam_fname), list(cna_rows))


def interval_coverages_count(bed_fname, bam_fname):
    Calculate log2 coverages in the BAM file at each interval.
Italian Trulli
In pattern: SUPERPATTERN

Frequency: 3

Non-data size: 4

Instances


Project Name: etal/cnvkit
Commit Name: 1aca5ab39c60307f7bfbee20474046d74badebd3
Time: 2015-04-17
Author: eric.talevich@gmail.com
File Name: cnvlib/coverage.py
Class Name:
Method Name: interval_coverages


Project Name: etal/cnvkit
Commit Name: 25016b4ef075defc711f6e18ab73013d4fa29e66
Time: 2015-06-13
Author: eric.talevich@gmail.com
File Name: cnvlib/coverage.py
Class Name:
Method Name: interval_coverages


Project Name: etal/cnvkit
Commit Name: 25016b4ef075defc711f6e18ab73013d4fa29e66
Time: 2015-06-13
Author: eric.talevich@gmail.com
File Name: cnvlib/reference.py
Class Name:
Method Name: combine_probes