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Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
A collection of Python APIs for interacting with the Cromwell
Official code repository for GATK versions 4 and up
Rawls service for DSDE
Viral genomics analysis pipelines
FireCloud user interface for web browsers.
Optimal transport for time-course single cell data
A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.
A package for designing compact and comprehensive probe sets.
additional examples for use with inferCNV
Rails/Docker application for the Broad Institute's single cell RNA-seq data portal
workbench identity and access management
Workbench utility libraries
Scripts / pipelines for slurping external datasets into Broad data repositories.
Inferring CNV from Single-Cell RNA-Seq
Easy batch submission of adhoc jobs onto GCP
Command line argument parser and online documentation generation utilities for java command line programs.
Diabetes portal for the Medical Population Genetics department at the Broad Institute
DSDE Deep Learning Club
NCATS Translator Indigo Team GUI