https://github.com/bhklab/pgxcwl
https://github.com/bhklab/pgxcwl
Last synced: 4 months ago
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- Host: GitHub
- URL: https://github.com/bhklab/pgxcwl
- Owner: bhklab
- Created: 2019-03-25T02:15:23.000Z (about 6 years ago)
- Default Branch: master
- Last Pushed: 2019-04-13T02:56:24.000Z (about 6 years ago)
- Last Synced: 2024-12-30T03:22:34.026Z (6 months ago)
- Language: R
- Size: 63.9 MB
- Stars: 0
- Watchers: 3
- Forks: 0
- Open Issues: 0
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Metadata Files:
- Readme: README.md
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README
# 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: