Heads up:
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.

How to make somatic variant calls from RNA-Seq data (tumor) and whole exome data (matched normal)

I'm in a situation to make variant calls from a mouse tumor cell line. We have RNA-Seq data from this tumor cell line but for the matched normal, what we have is the whole exome sequencing data. Is there any tools/workflows I can use in this case? Thanks!


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