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.
Mutect2 out of memory - not enough java heap space
I am running Mutect2 on whole genome sequencing and have run into an error with java. It seems to be running out of heap space towards the end of the run. I plan to add more with the -Xmx option and also spread the jobs out with intervals. However, I am wondering if there is a way to predict or determine how much heap space is actually needed for a Mutect2 run.