The McDonnell Genome Institute
Pinned repositories
Docker containerization of tools needed for concordance tool
MGI's CWL Cancer Pipelines.
Commands and Modules used by the Reference Improvement group.
Core modules used by the GMS
Docker containerization for the CLE
A fat docker image for running RnaSeq
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.
Rich Transactional Objects for Perl
the workflow server used at TGI
Docker for Running Sqitch with MySQL on Trusty at MGI
A fat docker image for running alignment
a tool for processing .bed and .vcf files
A full featured, including pull requests, git repo for the arvados_trial Wiki
fpfilter-tool
Forked from ucscCancer/fpfilter-toolwugc-hudson
Forked from philipkimmey/GSC-HudsonWashington University Genome Center Hudson testing suite and deploy scripts
toil
Forked from BD2KGenomics/toilA scalable, efficient, cross-platform and easy-to-use workflow engine in pure Python
count DNA sequence reads in BAM files
R package that uses a variational Bayesian approach to fitting a mixture of Beta distributions
An R package for inferring the subclonal architecture of tumors
Docker File for Running 10X Genomics Long Ranger Aligner
10X Genomics Cell Ranger Suite for Docker!
Graphite Config and Cron Scripts
Docker image for bcl2fastq2
Combination varscan/samtools container for easier running in workflows.
Docker containerization for Ensembl Variant Effect Predictor
Variant of vep image without an ENTRYPOINT
