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.

Mutect output reproducibility?

morovatuncmorovatunc turkeyMember


I just wanted to ask you that If I run mutect two times with the same parameters, do I expect same output or is there something stochastic going in the algorithm? If yes, I ran mutect with same parameters two time. The only difference was in one file there is vcf output positive and in the other file it was negative.

Thank you very much in advance.




Sign In or Register to comment.