--Sample name function can be useful

[idraktt]

Dear Brent,

First i want to say thank for that beatiful tool. We are implementing duphold filtration step in our cnv calling pipeline and it really helps to remove FPs. Unfortunately we came across with one issue when sample name in our snp vcf file is not the same as a SM tag in the BAM file. (Filename used for SAMPLE column in vcf file). Is it possible to add extra input parameter that will specify sample name to look for in snp vcf file?

[brentp]

I have just pushed a fix for this that allows the name to be set via the environment variable DUPHOLD_SAMPLE_NAME. This will be out in the next release.

Thanks for reporting.

[idraktt]

Thank you very much Brent for your help.

[brentp]

this is added, sorry for the long delay.