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UC Santa Cruz Genomics Institute - Computational Genomics Lab

Developers in the Computational Genomics Lab at the UC Santa Cruz Genomics Institute

6 followers
UC Santa Cruz
https://cgl.genomics.ucsc.edu/
cgl@ucsc.edu

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toil-rnaseq toil-rnaseqPublic
UC Santa Cruz Computational Genomics Lab's Toil-based RNA-seq pipeline
Python 41 10
toil-scripts toil-scriptsPublic
Toil workflows for common genomic pipelines
Python 33 18
protect protectPublic
Python 30 13
cgcloud cgcloudPublic
Image and VM management for Jenkins, Spark and Mesos clusters in EC2
Python 22 17
cgl-docker-lib cgl-docker-libPublic
Python 21 20
conductor conductorPublic
Efficient, distributed downloads of large files from S3 to HDFS using Spark.
Scala 17 7

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AllCC++Common Workflow LanguageJavaJavaScriptJupyter NotebookProtocol BufferPythonRScalaShellWDLWeb Ontology Language

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Showing 10 of 67 repositories

bd2k-python-lib Public
The BD2K Python module kitchen sink
BD2KGenomics/bd2k-python-lib's past year of commit activity
Python 4 5 3 1 Updated Apr 13, 2026
dcc-ops Public
The UCSC Genomics Institute's Computational Genomics Platform (CGP). This repo contains the Docker compose-based deployment process.
BD2KGenomics/dcc-ops's past year of commit activity
Shell 2Apache-2.0 4 51 2 Updated Dec 8, 2022
dcc-dockstore-tool-runner Public
A Dockstore tool designed to perform file downloads from Redwood, run another Dockstore tool, and then upload to Redwood.
BD2KGenomics/dcc-dockstore-tool-runner's past year of commit activity
Python 1Apache-2.0 2 5 6 Updated Jul 29, 2022
protect Public
BD2KGenomics/protect's past year of commit activity
Python 30Apache-2.0 13 33 5 Updated Oct 6, 2021
toil-rnaseq Public
UC Santa Cruz Computational Genomics Lab's Toil-based RNA-seq pipeline
BD2KGenomics/toil-rnaseq's past year of commit activity
Python 41Apache-2.0 10 11 1 Updated Aug 17, 2020
cgcloud Public
Image and VM management for Jenkins, Spark and Mesos clusters in EC2
BD2KGenomics/cgcloud's past year of commit activity
Python 22 17 49 3 Updated Jul 24, 2020
23andMe-brca-exchange Public
Get expert, curated information about your 23andMe results in the BRCA1 and 2 regions
BD2KGenomics/23andMe-brca-exchange's past year of commit activity
Python 6 3 0 2 Updated Oct 14, 2019
toil-scripts Public
Toil workflows for common genomic pipelines
BD2KGenomics/toil-scripts's past year of commit activity
Python 33Apache-2.0 18 48 6 Updated Oct 3, 2019
cgl-docker-lib Public
BD2KGenomics/cgl-docker-lib's past year of commit activity
Python 21 20 35 1 Updated Jul 3, 2019
dockstore_workflow_snps Public
Workflow for variant callers MuSE, MuTect, SomaticSniper, and Pindel
BD2KGenomics/dockstore_workflow_snps's past year of commit activity
Common Workflow Language 2 1 0 0 Updated May 16, 2018

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