Pinned repositories

  1. picard

    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 247 187

  2. cromwell

    Workflow Execution Engine using WDL

    Scala 126 28

  3. wdl

    Workflow Description Language - Specification and Implementations

    Java 115 28

  4. gatk

    GATK4 development

    Java 106 46

  5. pilon

    Pilon is an automated genome assembly improvement and variant detection tool

    Scala 59 13

  6. mutect

    MuTect -- Accurate and sensitive cancer mutation detection

    Java 47 37

  • Rawls service for DSDE

    Scala 6 1 Updated Mar 30, 2017
  • Diabetes portal for the Medical Population Genetics department at the Broad Institute

    JavaScript 1 1 Updated Mar 30, 2017
  • GATK4 development

    genomics science dna ngs sequencing genome bioinformatics

    Java 106 46 Updated Mar 30, 2017
  • 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 247 186 Updated Mar 30, 2017
  • GATK4 development of the license-protected part of the toolkit

    Java 22 15 Updated Mar 30, 2017
  • Scala 9 Updated Mar 30, 2017
  • Workflow Execution Engine using WDL

    Scala 126 28 Updated Mar 29, 2017
  • Cromwell integration testing environment

    Scala 1 Updated Mar 29, 2017
  • Component of the Broad-based gray team to the NCATS Biomedical translator

    Scala 1 Updated Mar 29, 2017
  • It's a methods repository!

    Scala 6 Updated Mar 29, 2017
  • FireCloud user interface for web browsers.

    Clojure 7 1 Updated Mar 29, 2017
  • Scala bindings for WDL

    HTML 1 4 Updated Mar 29, 2017
  • Workflow Description Language - Specification and Implementations

    Java 115 28 Updated Mar 29, 2017
  • A simple service to store arbitrary key/value pairs

    Scala 2 Updated Mar 29, 2017
  • FireCloud Service Selector (FISS) -- Python bindings and CLI for FireCloud execution engine

    Python 1 Updated Mar 28, 2017
  • Python and UNIX CLI utilities to simplify interaction with the NIH/NCI Genomics Data Commons

    Python 4 1 Updated Mar 28, 2017
  • Scala 8 2 Updated Mar 28, 2017
  • JavaScript 1 Updated Mar 28, 2017
  • Scala 3 2 Updated Mar 28, 2017
  • Composite of Multiple Signals: tests for selection in meiotically recombinant populations

    Python 7 2 Updated Mar 28, 2017
  • Python 1 Updated Mar 27, 2017
  • Python 3 1 Updated Mar 27, 2017
  • DSDE Deep Learning Club

    Python 1 Updated Mar 26, 2017
  • Utilities to help algorithm developers dockerize new tasks, debug them, and put them into Firecloud.

    Python 1 Updated Mar 24, 2017
  • Scala Updated Mar 23, 2017
  • Viral genomics analysis pipelines

    genomics genome variant-calling bam genome-sequencing illumina fastq

    Python 44 18 Updated Mar 23, 2017
  • Compliance CI

    Shell Updated Mar 23, 2017
  • Deployment files related to https://github.com/broadinstitute/viral-ngs

    docker deployment viral-ngs

    Shell 1 Updated Mar 21, 2017
  • Manage rsyslog through puppet

    Ruby 186 Updated Mar 19, 2017
  • Python Updated Mar 16, 2017