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Broad Institute

Broad Institute of MIT and Harvard

1.2k followers
Cambridge, MA
http://www.broadinstitute.org/
@broadinstitute

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gatk gatk Public

Official code repository for GATK versions 4 and up

Java 1.9k 624
picard picard Public

A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

Java 1.1k 382
cromwell cromwell Public

Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments

Scala 1.1k 381

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Showing 10 of 1472 repositories

popout Public
GPU-accelerated local ancestry inference at biobank scale, no reference panel required.

broadinstitute/popout’s past year of commit activity

Python 2 0 0 0 Updated Apr 19, 2026
juniper Public

broadinstitute/juniper’s past year of commit activity

Java 9 BSD-3-Clause 5 0 23 Updated Apr 19, 2026
SpliceAI-lookup-dev Public
dev. version of the spliceai-lookup.broadinstitute.org website

broadinstitute/SpliceAI-lookup-dev’s past year of commit activity

HTML 0 MIT 0 0 0 Updated Apr 19, 2026
gatk-sv Public
A structural variation pipeline for short-read sequencing

broadinstitute/gatk-sv’s past year of commit activity

Python 202 BSD-3-Clause 76 98 30 Updated Apr 19, 2026
gatk Public
Official code repository for GATK versions 4 and up

broadinstitute/gatk’s past year of commit activity

Java 1,937 624 1,284 (8 issues need help) 145 Updated Apr 19, 2026
long-read-pipelines Public
Long read production pipelines

broadinstitute/long-read-pipelines’s past year of commit activity

Jupyter Notebook 151 BSD-3-Clause 25 95 (2 issues need help) 25 Updated Apr 19, 2026
Drop-seq-wdl Public

broadinstitute/Drop-seq-wdl’s past year of commit activity

WDL 0 MIT 0 1 0 Updated Apr 19, 2026
Himito Public

broadinstitute/Himito’s past year of commit activity

WDL 9 MIT 2 0 0 Updated Apr 19, 2026
BE3D Public
BE3D public repository

broadinstitute/BE3D’s past year of commit activity

Python 1 MIT 0 2 0 Updated Apr 18, 2026
qprimer_designer Public
Design tool for highly performant qPCR diagnostics.

broadinstitute/qprimer_designer’s past year of commit activity

Python 6 MIT 1 5 0 Updated Apr 18, 2026

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