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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.

MuTect has been published and is now freely available!

kcibulkcibul Cambridge, MAMember, Broadie, Dev ✭✭✭
edited December 2015 in MuTect v1 Documentation

Please note that this article refers to the original standalone version of MuTect. A new version is now available within GATK (starting at GATK 3.5) under the name MuTect2. This new version is able to call both SNPs and indels. See the GATK version 3.5 release notes and the MuTect2 tool documentation for further details.

We are pleased to announce the publication of MuTect in Nature Biotechnology! The beta test program for MuTect is now complete. We are making the software freely available for academic non-commercial research purposes. Commercial users should contact [email protected] for information regarding a commercial license.

To read the publication, please visit:
http://www.nature.com/nbt/journal/vaop/ncurrent/abs/nbt.2514.html

If you have a manuscript where MuTect has been used, please reference it as:
"Cibulskis, K. et al. Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples. Nat Biotechnology (2013).doi:10.1038/nbt.2514"

Non-commercial users, to download the latest software visit:
http://www.broadinstitute.org/cancer/cga/mutect

Post edited by Geraldine_VdAuwera on
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