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.
BQSR quality strings
Hi! I have a question about the BQSR quality strings, those output as BD:Z, BI:Z and BQ:Z in the final BAM file. I would like to decrease the footprint of our final analysis files. I was thinking to remove those quality strings after the variant calling (since they are required for variant calling). I read in one of your posts that it could be possible to retrieve those quality strings back if one has the recalibration tables by just using printreads option? Could you confirm that this is the case?