GATK Dev Team
@gatk_dev
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We are the computational biologists and software engineers who develop and support the Broad Institute's Genome Analysis Toolkit, or GATK.
Cambridge, MA
Joined June 2012
As of May 1st 2025, GATK forums will be community-driven and self-moderated. They will not be moderated or monitored by a GATK team member. We encourage members of the community to continue to engage with each other on these forums.
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GATK 4.6 is out with some much-requested changes to no-call behavior, plus an important CRAM bug fix. Check out the release notes ( https://t.co/CaBX7vemzg). This is definitely a recommended upgrade for all GATK users! #gatk
github.com
Download release: gatk-4.6.0.0.zip Docker image: https://hub.docker.com/r/broadinstitute/gatk/ Highlights of the 4.6.0.0 release: We've fixed a serious CRAM writing bug that affects GATK vers...
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Using a deep generative model, CellBender models and denoises droplet-based single-cell data and improves multiple downstream analyses. @broadinstitute @patrick_ellinor @gatk_dev
https://t.co/yEB0OFCmWP
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Pretending to be a biologist this week - am learning so much in the @BioInfoCambs / @broadinstitute course on using the @gatk_dev for variant discovery 🧬
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Parabricks 4.0 is FREE for R&D, and the team made prebuilt workflows in #wdl and #nextflow available: https://t.co/lSji8MOseE . They're on @TerraBioApp ( https://t.co/uLTFDD4Nsq), up to 24X faster, up to 2X cheaper, and publicly available on GitHub:
github.com
Clara Parabricks Workflows has 14 repositories available. Follow their code on GitHub.
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Nvidia Clara Parabricks has accelerated #bwa, #gatk HaplotypeCaller, mutect2, DeepVariant, bam -> fastq, QC tools, functionally equivalent to community versions, up to _80X_ faster, FREE for R&D, + available with @nvidia AI Enterprise support:
nvidia.com
Discover How AI Is Transforming the Genomics Industry.
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Two hours of hands-on training tomorrow could save you two months of googling! Register now for our online interactive workshop on DRAGEN-GATK, the latest version of our open source Best Practices for whole genome analysis.
gatk.broadinstitute.org
This October 21, join us for an interactive online workshop on Whole-Genome Analysis with DRAGEN-GATK! In this webinar, you will get the opportunity to will learn what it is, why it exists, and how...
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Last chance to register for our interactive online workshop this Friday — Just 2 hours to learn the ins and outs of running the open source DRAGEN-GATK pipeline!
gatk.broadinstitute.org
This October 21, join us for an interactive online workshop on Whole-Genome Analysis with DRAGEN-GATK! In this webinar, you will get the opportunity to will learn what it is, why it exists, and how...
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Don't miss our interactive online workshop on DRAGEN-GATK this Friday, 10:30AM–12:30PM EST — Register today!
gatk.broadinstitute.org
This October 21, join us for an interactive online workshop on Whole-Genome Analysis with DRAGEN-GATK! In this webinar, you will get the opportunity to will learn what it is, why it exists, and how...
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Our team is pulling out all the stops for this special interactive session on DRAGEN-GATK! Including making fan art… credit to Derek Caetano-Anolles https://t.co/5ZLkoAmAaw
Don't miss our interactive online workshop on DRAGEN-GATK this Friday, 10:30AM–12:30PM EST — Register today!
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Don't miss our interactive online workshop on DRAGEN-GATK this Friday, 10:30AM–12:30PM EST — Register today!
gatk.broadinstitute.org
This October 21, join us for an interactive online workshop on Whole-Genome Analysis with DRAGEN-GATK! In this webinar, you will get the opportunity to will learn what it is, why it exists, and how...
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📣 Don't miss these interactive online #bioinformatics workshops — smash that register button today! https://t.co/mRmK9esfyB
terra.bio
In response to popular demand, our User Education team has been running weekly interactive workshops to help newcomers get started with Terra. They’ve also developed some satellite workshops that use...
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📣 New GATK release! 4.3.0.0 adds stable support for the @UltimaGenomics flow-based sequencing platform among other feature improvements. Release notes here:
github.com
Download release: gatk-4.3.0.0.zip Docker image: https://hub.docker.com/r/broadinstitute/gatk/ Highlights of the 4.3.0.0 release: Support for the Ultima Genomics flow-based sequencing platform ...
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📣 New #GATK webinar! Learn how to do Whole-Genome Analysis with DRAGEN-GATK 🧬🧬🧬 October 21, 2022 from 10:30AM–12:30PM EST. Register today to get the zoom invite! #Bioinformatics
#training #genomics
gatk.broadinstitute.org
This October 21, join us for an interactive online workshop on Whole-Genome Analysis with DRAGEN-GATK! In this webinar, you will get the opportunity to will learn what it is, why it exists, and how...
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Exciting to see hardware accelerated GATK workflows made available on @TerraBioApp so anyone can enjoy the huge speed boost and lower cost
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Read Terra's blog on the collaboration to adapt @UltimaGenomics data for GATK variant calling, which includes workspace preloaded with sample data and the fully configured analysis workflow:
terra.bio
Computational biologist and GATK team member Megan Shand describes the new GATK pipeline for processing short-read WGS data produced by the Ultima Genomics technology.
@BertGoldPhD @seankenneths It appears that @UltimaGenomics WGS datasets for @GenomeInABottle samples are now available at
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@mikhaeldito313 @tangming2005 @DrYaraSanchez @gali_bai @constantAmateur For those interested: New Terra Blog post on CellBender https://t.co/l2LkvE7iG1
terra.bio
Guest author Stephen Fleming introduces CellBender, a software package for eliminating technical artifacts from high-throughput scRNA-seq and other multi-omics data.
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Human geneticist know its been a nightmare to call reliable #CNVs from #exome. Fortunately @TalkowskiLab helps calling CNVs on our @broadinstitute-sequenced samples. Image our excitement with the new benchmarked algorithm #GATK-gCNV https://t.co/wjuC4nk7zp
#bioRxiv! Awesome!
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The benefits of joint calling in practice, powering advances in schizophrenia & other common diseases research. This is why we do what we do. #genomics
Why analyze genomic variation in large cohorts? Computational biologist and longtime @gatk_dev team member Laura Gauthier provides an inside perspective on the methodologies underpinning recent discoveries in common disease research https://t.co/G6PrNA05eE
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