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.
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.
We will be out of the office for a Broad Institute event from Dec 10th to Dec 11th 2019. We will be back to monitor the GATK forum on Dec 12th 2019. In the meantime we encourage you to help out other community members with their queries.
Thank you for your patience!
GATK License and Redistributing in an AWS AMI
I have been asked to reach out to you to clarify the GATK license. We are hoping to package our CNV/SNP calling and annotation pipeline that includes GATK and make it available on an Amazon Machine Image (AMI) for use on the Amazon EC2 cloud for anyone who wants to replicate our protocol using their own data. Of all the tools that we use, only GATK contains license restrictions. It is our intent that our AMI be used by academic/non-commercial users, and it is not intended to be sold. We can list the AMI in the AWS Marketplace as a Bring Your Own License (BYOL) instance. However, there are no checks provided by Amazon that users do in fact have a license. Is this permissible?