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.
My ReadPosRankSumTest (ReadPosRankSum) distribution looks funny
I was looking at the hard filtering cutoffs and hence looking at the distributions of MQ, QD, MRankSum and so on. All look fine - similar to yours (https://software.broadinstitute.org/gatk/documentation/article.php?id=6925) but one. I was wondering wether my ReadPosRankSumTest (ReadPosRankSum) distribution looks indeed funny or if there is a specific reason for that.