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.
ReadBackedPhasing Read Depths
Is it intended that ReadBackedPhasing does not propagate the read depths of merged SNVs (and if so, why not)? My lab is considering going back to the original and getting the minimum read depth and allele depths so as to have this information for such variants.