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https://github.com/bhklab/pgxcwl

https://github.com/bhklab/pgxcwl

Science Score: 13.0%

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Last synced: 10 months ago · JSON representation

Repository

Basic Info
  • Host: GitHub
  • Owner: bhklab
  • Language: R
  • Default Branch: master
  • Size: 63.9 MB
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Created over 7 years ago · Last pushed about 7 years ago
Metadata Files
Readme

README.md

CWL

CWL workflows for generating GRAY (2013,2017) and UHNBreast (2017,2019) PharmacoSets(PSets) using the PharmacoGx toolset.

To execute a workflow, perform the following command within the workflow directory of a respective dataset (example for GRAY 2017 dataset):

cwltool getGRAY2017_Workflow.cwl getGRAY2017_Workflow.yml

NOTE: Methylation data for GRAY 2013 and 2017 are compressed for uploading to GitHub. Therefore, please unzip the raw data file before execution.

These pipelines and generated PSets can be found on Code Ocean and Harvard Dataverse at the following links:

Code Ocean:

Harvard Dataverse:

Owner

  • Name: BHKLAB
  • Login: bhklab
  • Kind: organization
  • Location: Toronto, Ontario, Canada

The Haibe-Kains Laboratory @ Princess Margaret Cancer Centre

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