Heads up:
We’re moving the GATK website, docs and forum to a new platform. Read the full story and breakdown of key changes on this blog.
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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.

Non model organisms SNP database

When creating a custom training database of "known sites" we do stringent filtering to create a .vcf of variants to use. If we have one control sample and several phenotype samples- does the created database come from their respective sample or do we create the database from the control sample and use that database as the training database of "known sites" for all the samples? Are these custom training databases used in Mutect2?

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