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.
BroadE Workshop 2015 March 19-20: Best Practices for Variant Calling with the GATK
The full GATK team presented this workshop at the Broad Institute with support form the BroadE education program.
This workshop covered the core steps involved in calling variants with the Broad’s Genome Analysis Toolkit, using the “Best Practices” developed by the GATK team. The presentation materials describe why each step is essential to the calling process, what are the key operations performed on the data at each step, and how to use the GATK tools to get the most accurate and reliable results out of your dataset.
The workshop materials are available at this link if you're viewing this post in the forum, or below if you are viewing the presentation page already.