StanfordBioinformatics/mvp_aaa_codelabs
Queries to perform qc and analysis on genomes in BigQuery
Developer Profile
StanfordBioinformatics
Discovered public repositories for StanfordBioinformatics in the GitHub catalog.
StanfordBioinformatics/ingenuity-util
A command-line utility to upload VCF's using the Ingenuity Datastream API.
StanfordBioinformatics/loom
A tool for running bioinformatics workflows locally or in the cloud.
StanfordBioinformatics/coverage_stats
Post-processing of GATK DepthOfCoverage output to gather genelist-specific stats and other metrics.
StanfordBioinformatics/scgs_pipeline
Stanford Clinical Genomics Service analysis and QC pipeline
StanfordBioinformatics/scgpm_lims
A python client for the SCGPM LIMS API
StanfordBioinformatics/arvados-pilot
Public repository.
StanfordBioinformatics/pubble
Public repository.
StanfordBioinformatics/vizzle
A collection of tools to create plots and figures. Initially targeting QC metrics, but can be expanded to other types of data.
StanfordBioinformatics/googva
Public repository.
StanfordBioinformatics/JsonWf
A JSON workflow framework
StanfordBioinformatics/gbsc_utils
DNXNexus Integration Code
StanfordBioinformatics/GBSC_Billing
This repository holds the scripts that allow the GBSC to bill its PIs for storage and compute usage on our cluster, cloud services, and bioinformatics consulting.
StanfordBioinformatics/StanfordSandBox
This is a dummy repository, created to help new users get familiar with GIT, Push and Pull Source code. This repository should contain no ACTUAL PROGRAM or INFORMATION.
StanfordBioinformatics/autocopy
Autocopy handled transfer of sequencing data to the cluster and now DNAnexus
StanfordBioinformatics/SJM
Simple Job Manager
StanfordBioinformatics/HugeSeq
For original Nature Biotechnology Publication (Q1 2012)