This site is now read-only. You can find our new documentation site and support forum for posting questions here.
Be sure to read our welcome blog!
Somatic mutations based on sliced bam
I would like to retrieve simple somatic mutations (using mutect2) from a bam file. However, I am interested in mutations in specific areas in the DNA only (for example, specific chromosoms). Can I calculate the mutations based on a sliced bam file? or should I first run the tool to generate the somatic mutations file, and then slice it?