Broad Institute

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1.3k repositories

python-cert_manager
Public
Python interface to the Sectigo Certificate Manager REST API
Python
•
BSD 3-Clause "New" or "Revised" License
•22•37•2•2•Updated Feb 10, 2025Feb 10, 2025
puppet-pdsh
Public
Puppet module to control the pdsh application
Ruby
•0•0•0•1•Updated Feb 10, 2025Feb 10, 2025
puppet-amavisd
Public
Puppet module for installing and configuring amavis-new
Puppet
•
BSD 3-Clause "New" or "Revised" License
•2•0•0•1•Updated Feb 10, 2025Feb 10, 2025
long-read-pipelines
Public
Long read production pipelines
pipelines wdl variant-calling de-novo-assembly long-reads
Jupyter Notebook
•
BSD 3-Clause "New" or "Revised" License
•24•143•95•27•Updated Feb 10, 2025Feb 10, 2025
bits-appengine
Public
BITS AppEngine Python Package
Python
•0•0•0•1•Updated Feb 10, 2025Feb 10, 2025
sherlock
Public
DSP DevOps's deployment source-of-truth service
golang postgres gorm
Go
•
BSD 3-Clause "New" or "Revised" License
•0•1•0•10•Updated Feb 10, 2025Feb 10, 2025
puppet-qualys_agent
Public
Puppet module for installing and configuring the Qualys Cloud Agent
Ruby
•
BSD 3-Clause "New" or "Revised" License
•8•3•2•1•Updated Feb 10, 2025Feb 10, 2025
jump_hub
Public
Collection of JUMP documentation and projects for internal and public consumption
compbio profiling
Python
•
Creative Commons Zero v1.0 Universal
•1•2•6•0•Updated Feb 9, 2025Feb 9, 2025
2024-09-27-python-intro-lesson
Public
Based on https://github.com/librarycarpentry/lc-python-intro/
HTML
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Other
•1•0•0•1•Updated Feb 9, 2025Feb 9, 2025
BEClust3D
Public
Jupyter Notebook
•
Other
•0•0•0•8•Updated Feb 9, 2025Feb 9, 2025
gatk
Public
Official code repository for GATK versions 4 and up
science bioinformatics genomics genome ngs sequencing dna spark gatk
Java
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Other
•596•1.8k•1.2k•136•Updated Feb 9, 2025Feb 9, 2025
VecTreeID
Public
Amplicon taxonomic identification pipeline for Neafsey Lab
python taxonomy phylogenetics
Python
•0•1•0•0•Updated Feb 9, 2025Feb 9, 2025
juniper0
Public
Preliminary Version of JUNIPER: Large-Scale Outbreak Reconstruction
R
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MIT License
•0•3•0•0•Updated Feb 9, 2025Feb 9, 2025
genetic-prevalence-estimator
Public
Python
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BSD 3-Clause "New" or "Revised" License
•0•1•45•4•Updated Feb 9, 2025Feb 9, 2025
gnomad_methods
Public
Hail helper functions for the gnomAD project and Translational Genomics Group
genomics genomes exomes hail
Python
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MIT License
•29•92•9•8•Updated Feb 9, 2025Feb 9, 2025
cromwell
Public
Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
docker application cloud bioinformatics scala executor hpc containers wdl ga4gh
Scala
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BSD 3-Clause "New" or "Revised" License
•359•1k•744•48•Updated Feb 8, 2025Feb 8, 2025
Drop-seq
Public
Java tools for analyzing Drop-seq data
Java
•
MIT License
•35•124•22•0•Updated Feb 8, 2025Feb 8, 2025
Drop-seq-wdl
Public
WDL
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MIT License
•0•0•0•0•Updated Feb 8, 2025Feb 8, 2025
lembic
Public
Distilling some data for CFDE
Rust
•
BSD 3-Clause "New" or "Revised" License
•0•0•0•0•Updated Feb 8, 2025Feb 8, 2025
viral-pipelines
Public
viral-ngs: complete pipelines
WDL
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Other
•28•61•23•17•Updated Feb 7, 2025Feb 7, 2025
depmap-portal
Public
Code for the DepMap portal at depmap.org
Python
•
BSD 2-Clause "Simplified" License
•1•7•0•8•Updated Feb 7, 2025Feb 7, 2025
dig-dug-portal
Public
Vue
•
BSD 3-Clause "New" or "Revised" License
•1•2•0•1•Updated Feb 7, 2025Feb 7, 2025
gnomad-blog
Public
Blog for the gnomAD project
JavaScript
•
BSD 3-Clause "New" or "Revised" License
•0•3•7•3•Updated Feb 7, 2025Feb 7, 2025
epi-lims-workflows
Public
Ruby
•0•0•0•0•Updated Feb 7, 2025Feb 7, 2025
firecloud-orchestration
Public
Scala
•
BSD 3-Clause "New" or "Revised" License
•4•31•0•2•Updated Feb 7, 2025Feb 7, 2025
juniper
Public
Java
•
BSD 3-Clause "New" or "Revised" License
•5•9•0•6•Updated Feb 7, 2025Feb 7, 2025
DropSift
Public
cell caller for sn/snRNA sequence data
R
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Other
•0•0•0•0•Updated Feb 7, 2025Feb 7, 2025
gnomad_qc
Public
Jupyter Notebook
•
BSD 3-Clause "New" or "Revised" License
•27•69•6•13•Updated Feb 7, 2025Feb 7, 2025
gatk-sv
Public
A structural variation pipeline for short-read sequencing
bioinformatics genomics structural-variation structural-variants
Python
•
BSD 3-Clause "New" or "Revised" License
•72•177•74•22•Updated Feb 7, 2025Feb 7, 2025
seqr-loading-pipelines
Public
hail-based pipelines for annotating variant callsets and exporting them to elasticsearch
Python
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MIT License
•20•23•24•5•Updated Feb 7, 2025Feb 7, 2025