fa662d348e088ad1709f554aa5268e7a774a0fe8,cnvlib/antitarget.py,,get_background,#Any#Any#Any#Any#,13

Before Change


        - Divide into equal-size (region_size/avg_bin_size) portions
        - Emit the (chrom, start, end) coords of each portion
    
    target_chroms = group_coords(ngfrills.parse_regions(target_bed, True))
    if access_bed:
        // Chromosome accessible sequence regions are given -- use them
        access_chroms = group_coords(ngfrills.parse_regions(access_bed, True))

After Change


    target_chroms = group_coords(RA.read(target_bed).coords())
    if access_bed:
        // Chromosome accessible sequence regions are given -- use them
        access_chroms = group_coords(RA.read(access_bed).coords())
    else:
        // Chromosome accessible sequence regions not known -- use heuristics
        // (chromosome length is endpoint of last probe; skip initial
Italian Trulli
In pattern: SUPERPATTERN

Frequency: 4

Non-data size: 4

Instances


Project Name: etal/cnvkit
Commit Name: fa662d348e088ad1709f554aa5268e7a774a0fe8
Time: 2015-08-13
Author: eric.talevich@gmail.com
File Name: cnvlib/antitarget.py
Class Name:
Method Name: get_background


Project Name: etal/cnvkit
Commit Name: fa662d348e088ad1709f554aa5268e7a774a0fe8
Time: 2015-08-13
Author: eric.talevich@gmail.com
File Name: cnvlib/coverage.py
Class Name:
Method Name: interval_coverages_count


Project Name: etal/cnvkit
Commit Name: fa662d348e088ad1709f554aa5268e7a774a0fe8
Time: 2015-08-13
Author: eric.talevich@gmail.com
File Name: cnvlib/reference.py
Class Name:
Method Name: bed2probes


Project Name: etal/cnvkit
Commit Name: fa662d348e088ad1709f554aa5268e7a774a0fe8
Time: 2015-08-13
Author: eric.talevich@gmail.com
File Name: cnvlib/commands.py
Class Name:
Method Name: _cmd_scatter