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.
Question about new VQSR
In VQSR section all references point to the old, GMM-based VQSR. Is the new, random-forest based, VQSR available?
Also, I am interested in the new methodology, and the only thing I found in the dropbox is that
“new VQSR trains random forest from the labels assigned by GMM”. I'm not sure how and why GMM is used jointly with random forest when you decided to switch to the latter. Is it possible to find out more about how it works?
Thanks in advance,
Nik Tuzov, Ph.D.