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.
Extremely high depth of coverage
I've run the DepthOfCoverage tool on 263 WGS samples and have found some unusual total and averages for some regions.
Does it mean any sort of error on the alignment or I can just filtered this regions out when calling the genotypes?
I'm attaching a example for one chromosome.