Notice:
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!
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.
GATK Support Forum
Category List
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Expand for more options.Announcements regarding new tools and features, as well as user support service and forum features
269 discussions
1.1K comments
Most recent: New! Mitochondrial Analysis with Mutect2 by deena_b
November 8
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Expand for more options.Errors, bugs, problems and usage questions. This forum is maintained by support staff who answer questions with assistance from the developers of the GATK
17.2K discussions
44.9K comments
Most recent: Mutect2 repeatedly not detecting somatic variant IDH2 R172K, with solid read support and 5% AF by mack812
8:53AM
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Expand for more options.This section contains the GATK4 documentation. This content is best viewed at https://software.broadinstitute.org/gatk/documentation.
142 discussions
774 comments
Most recent: (How to) Call somatic mutations using GATK4 Mutect2 by jamesp
November 10
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Expand for more options.This is an exact mirror of the GATK website Guide pages, with the added possibility of commenting on the documentation articles. For detailed information about the GATK Best Practices workflows, please see https://www.broadinstitute.org/gatk/guide/best-practices.php.
197 discussions
4.3K comments
Most recent: Which datasets should I use for reviewing or benchmarking purposes? by ipeddie
8:19AM
Child Categories: Tutorials, Frequently Asked Questions, Solutions to Problems, Methods and Algorithms, Dictionary, GATK 4 Beta, Archive
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Expand for more options.This section is intended for discussions that are specifically about resources for analysis of non-human data.
671 discussions
-36 comments
Most recent: Are there any default --contig-ploidy-priors available? by slee
August 25
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Expand for more options.Tools developed by other groups
785 discussions
2.2K comments
Most recent: A fatal error has been detected by the Java Runtime Environment while running Genome Strip. by bhandsaker
November 8