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agfusion

Python package to annotate and visualize gene fusions.

amber

analysis-wdls

Early stages of converting genome/analysis-workflows from CWL to WDL

analysis-workflows

Pilot test for using the Arvados system to create new MGI cancer pipelines.

bfx-workshop

bga-interface-projects

Monorepo for user-interface projects of the Bioinformatics and Genome Analytics group at MGI

cancervariants.org

Website for Variant Interpretation for Cancer Consortium:

civic-client

Web client for CIViC: Clinical Interpretations of Variants in Cancer

civic-server

Backend Server for CIViC Project

civic_svi_course

A hands on course explaining how to complete somatic cancer variant interpretation using CIViC and current guidelines

dgi-db

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

docker-bam-readcount

Docker containerization for "bam-readcount"

docker-bam_readcount_helper-cwl

docker-cle

Docker containerization for the CLE

docker-pvactools

docker-rnaseq

A fat docker image for running RnaSeq

docker-strelka

A docker image for Strelka

docker-strelka-cwl

A wrapper for the docker-strelka image for use in CWL-based workflows.

docker-vatools

docker-vep

Docker containerization for Ensembl Variant Effect Predictor

docker-vep-cwl

Variant of vep image without an ENTRYPOINT

docker-vep_helper-cwl

docm

Rails frontend to The Genome Institute's database of curated mutations (DoCM)

genome

genome-snapshot-deps

DO NOT USE !! meta package for installing genome dependencies

genome-sqitch

jupyterworkflow

Jupyter Workflow Example

lunchinator

A Slack Integration for Lunch Groups

mhcflurry

Peptide-MHC I binding affinity prediction

mhcnuggets

Public facing repository for the MHCnuggets method