Test-drive the GATK tools and Best Practices pipelines on Terra
Check out this blog post to learn how you can get started with GATK and try out the pipelines in preconfigured workspaces (with a user-friendly interface!) without having to install anything.
MuTect v1 or Mutect v2?
Hi! I downloaded the cosmic file b37_cosmic_v54_120711.vcf, but still I had an error after running MuTect v1. Should I still go through liftover and filtering process this later file? Or best, I am using GATK v3.5 where MuTect v2 is included, then is just using the coding mutants Cosmic vcf from cancer.sanger.ac.uk/cosmic/download is good enough? There is the big problem!
Thank you for your help.