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.
Java 7/8 Correctness Issues
In your recent announcement email, you mentioned that there are "potential correctness issues" with running current versions of GATK with Java 8. We've run the pipeline both with Java 8 and with Java 7 and didn't observe any issues. Because of Java's binary compatibility, it's not obvious what would cause problems. Could you please expand upon what sort of correctness issues could occur by using Java 8 with the current pipeline?