If you happen to see a question you know the answer to, please do chime in and help your fellow community members. We encourage our fourm members to be more involved, jump in and help out your fellow researchers with their questions. GATK forum is a community forum and helping each other with using GATK tools and research is the cornerstone of our success as a genomics research community.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.
DepthOfCoverage takes many hours to run
I am using DepthOfCoverage on a targeted sequencing bam of 400 mbs, reading from hg19 (3 gbs), with an Intel core i3 2.0 ghz processor and 4 gbs of RAM. The remaining hours for completion are almost 60. How should I upgrade my system in order to make it run considerably faster ? My total file list is over 100 BAMs.