@genome

The McDonnell Genome Institute

Pinned repositories

  1. gms

    The Genome Modeling System installer

    Perl 53 18

  2. bam-readcount

    count DNA sequence reads in BAM files

    Python 53 27

  3. sciclone

    An R package for inferring the subclonal architecture of tumors

    R 46 27

  4. civic-client

    Web client for CIViC: Clinical Interpretations of Variants in Cancer

    JavaScript 28 24

  5. dgi-db

    Rails frontend to The Genome Institute's drug gene interaction database.

    Ruby 22 13

  6. civic-server

    Backend Server for CIViC Project

    JavaScript 24 23

  • Commands and Modules used by the Reference Improvement group.

    Perl 1 Updated Mar 30, 2017
  • Pilot test for using the Arvados system to create new MGI cancer pipelines.

    1 4 Updated Mar 30, 2017
  • Web client for CIViC: Clinical Interpretations of Variants in Cancer

    JavaScript 28 24 Updated Mar 30, 2017
  • Core modules used by the GMS

    Perl 16 47 Updated Mar 29, 2017
  • Docker containerization for the CLE

    Perl 4 Updated Mar 28, 2017
  • Rich Transactional Objects for Perl

    Perl 2 8 Updated Mar 24, 2017
  • Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants at single-based resolution from next-gen sequence data. It uses a pattern growth approach to identify the breakpoints of these variants from paired-end short reads.

    SystemVerilog 59 37 Updated Mar 20, 2017
  • Rails frontend to The Genome Institute's drug gene interaction database.

    Ruby 22 13 Updated Mar 17, 2017
  • Backend Server for CIViC Project

    JavaScript 24 23 Updated Mar 16, 2017
  • Perl 7 Updated Mar 16, 2017
  • Docker for Running Sqitch with MySQL on Trusty at MGI

    Updated Mar 14, 2017
  • A full featured, including pull requests, git repo for the arvados_trial Wiki

    Shell 1 Updated Mar 14, 2017
  • count DNA sequence reads in BAM files

    Python 53 26 Updated Mar 9, 2017
  • R package that uses a variational Bayesian approach to fitting a mixture of Beta distributions

    R 2 7 Updated Mar 8, 2017
  • An R package for inferring the subclonal architecture of tumors

    R 46 27 Updated Mar 8, 2017
  • Washington University Genome Center Hudson testing suite and deploy scripts

    Perl 2 7 Updated Mar 6, 2017
  • Docker File for Running 10X Genomics Long Ranger Aligner

    Shell 1 Updated Feb 23, 2017
  • 10X Genomics Cell Ranger Suite for Docker!

    Shell Updated Feb 21, 2017
  • Graphite Config and Cron Scripts

    Perl 3 1 Updated Feb 9, 2017
  • Docker image for bcl2fastq2

    Updated Feb 7, 2017
  • Combination varscan/samtools container for easier running in workflows.

    2 Updated Feb 7, 2017
  • Docker containerization for Ensembl Variant Effect Predictor

    2 Updated Jan 13, 2017
  • Variant of vep image without an ENTRYPOINT

    1 Updated Jan 13, 2017
  • Updated Jan 11, 2017
  • Beautiful static documentation for your API

    JavaScript 7,183 Updated Jan 5, 2017
  • A wrapper for the docker-strelka image for use in CWL-based workflows.

    1 Updated Dec 23, 2016
  • A docker image for Strelka

    1 Updated Dec 23, 2016
  • Repo for advertising and organizing CIViC hackathon/meeting activities

    7 3 Updated Dec 20, 2016
  • For CIViC curation issues that do not directly involve code changes

    Updated Dec 21, 2016
  • pindelsomaticfilter docker container for cwl

    Updated Dec 18, 2016