genome Goto Github PK
Name: The McDonnell Genome Institute
Type: Organization
Location: St. Louis, MO
Blog: http://genome.wustl.edu/
# Genome
Genome analysis software from The Genome Institute at Washington University
School of Medicine, funded by the National Human Genome Research Institute.
## Testing
Running tests currently depends on many TGI resources so testing cannot be
performed outside TGI at this time. Within TGI you can run tests by doing,
genome-test-env test-tracker prove --lsf --git
This chains the `genome-test-env` and `test-tracker` commands together. See
`test-tracker prove --help` for its usage. For example, you may need to pass a
value to the `--git` option if your branch is not setup to track
`origin/master`.
The McDonnell Genome Institute's Projects
agfusion
Python package to annotate and visualize gene fusions.
amber
aml31benchmarking
analysis-workflows
Open workflow definitions for genomic analysis from MGI at WUSM.
bam-readcount
Count bases in BAM/CRAM files
bfx-workshop
bmm
R package that uses a variational Bayesian approach to fitting a mixture of Beta distributions
breakdancer
SV detection from paired end reads mapping
build-common
common build scripts used in c/c++ projects
cancer-genomics-workflow-wiki
A full featured, including pull requests, git repo for the arvados_trial Wiki
chimerascan-vrl
A fork of chimerascan that supports variable read lengths
cig-pipelines
Workflows and resources for running pipelines for somatic mutation discovery in pangenomes plus miscellaneous tools..
cle
Repo for cle related software
cle-myeloseq
Repo for cle myeloseq/haloplex assay
cle-myeloseqhd
cncwl
concordance
configuration-manager
Autoloading configuration manager for use in the genome modeling system
diagnose_dups
A tool to examine duplicate read characteristics in a BAM file
dindel-tgi
A fork of dindel
docker-alignment_helper-cwl
docker-annotation_table-cwl
docker-annotsv-cwl
Docker container for running AnnotSV
docker-bam-merge
docker-bam-readcount
Docker containerization for "bam-readcount"
docker-bam-readcount-cwl
docker-bam_readcount_helper-cwl
docker-basespace_chromoseq
docker-bcftools
Docker container for bcftools
docker-bcftools-cwl
Variant of bcftools image without an ENTRYPOINT
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