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.

How do you use SelectVariants to compare cases and controls?

I can't seem to find this in the documentation (I'm sure it's there!). Can I use SelectVariants to pull out variants that segregate in a particular way with case/control status.

e.g. Variants in which all the cases are homozygous AA and the controls are AB or BB (for instance)



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