We’re moving the GATK website, docs and forum to a new platform. Read the full story and breakdown of key changes on this blog.
If you happen to see a question you know the answer to, please do chime in and help your fellow community members. We encourage our fourm members to be more involved, jump in and help out your fellow researchers with their questions. GATK forum is a community forum and helping each other with using GATK tools and research is the cornerstone of our success as a genomics research community.We appreciate your help!
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.
Is there any way to generate interval list from available exome data?
I am following the "best practice" suggested by broad institute to call variants from whole exome sequencing data. Currently, I am using Mutect2 to call variants from tumor sample and normal sample based on latest reference genome GRCh38. But, I don't have interval list to use -L option. Is there any way to generate interval list from exome sample which I have? or Is there any default interval list for exome data?