GATK call arm level chromosome copy number variations (cnv)

Question

[SunRise2019]

Hi, I am new to GATK and would like to know how to make cnv calls for chromosome arms. Any idea? Thanks.

Answer 1

[vdauwera]

You can ask this in the GATK forum, their support team will point you to the information resources you need and assist you if you run into any problems.

https://gatk.broadinstitute.org/hc/en-us/community/topics