If you happen to see a question you know the answer to, please do chime in and help your fellow community members. 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.
VQSR omni truth or not?
Hi, I am working with b37 datasets from resource bundle. I am finding conflicting advise through various internet resources, on using 1000G_omni2.5.b37.vcf as truth or not. While current broad best practices identify this as truth=true for VariantRecalibrator, many other pipelines and resources mention otherwise.
Could you please clarify which is the case and whether b37 vs b38 has any impact on this decision.