'chr' confusion

[dharbi]

I have noticed getting always normal results with mislabeled plots when 'chr' word is within the interval list file provided, or in GATK DepthOfCoverage output files (*sample_interval_summary).
Please be sure that these files are without 'chr' word (i.e., chr14 should be modified to 14, using for example sed command).

[biocyberman]

I observed this too. I added some modification in the VisCap.R to fix it, no need for an external command.

[leefall]

I did pull request of the script for both "chr"prefix chromosome and only chromosome number.