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.
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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.
[GATK 22.214.171.124] FilterMutectCalls based on Strand Odds Ratio value?
Hi, I was able to get SOR values in the vcf file using Mutect2 --annotation StrandOddsRatio option in GATK 126.96.36.199 to filter out calls with high SOR values.
But I can't find any filtering option to use this value with FilterMutectCalls in GATK 188.8.131.52 version. I only see the option --min-reads-per-strand. How can I filter out strand-biased calls in GATK 184.108.40.206 version?