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.
how to choose the cosmic file for MuTect
I have a question for the cosmic file when using MuTect for somatic SNV discovery from tumour-normal exome sequencing data. Please look at this website, cancer.sanger.ac.uk/cosmic/download , I am not sure which file I need to download as input cosmic file for MuTect, complete mutation data or VCF files (coding and non-coding mutations) ? Thanks very much for your time.