The Frontline Support team will be offline February 18 for President's Day but will be back February 19th. Thank you for your patience as we get to all of your questions!
RNA-seq variant calling for somatic
I want to find best practice to do variant calling from this page : https://software.broadinstitute.org/gatk/best-practices/
I have exome-seq and RNA-seq data and I think because the sample is from human cancer, the workflow I need to follow is somatic. I don't see any best practice that use RNA-seq for somatic cell. Any suggestion which best practice I should follow and which data, RNA-seq or exome-seq I should use? Thank you.