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.

Mutect2 Oncotator gives unknown for matched normal seq

I ran Mutect2 pipeline for a matched tumor-normal pair and called oncotator as a part of the workflow. The maf generated by the oncotator says unknown for matched normal seq for every mutation called. How can I see if the mutation was present in the normal seq as well?


Sign In or Register to comment.