Use ploidy for copy.num when running GISTIC - Githubissues

AlexsLemonade / OpenPBTA-analysis

The analysis repository for the Open Pediatric Brain Tumor Atlas Project

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Use ploidy for copy.num when running GISTIC #1400

Closed jaclyn-taroni closed 2 years ago

jaclyn-taroni commented 2 years ago

Purpose/implementation Section

Closes #1180 using the same solution as https://github.com/PediatricOpenTargets/OpenPedCan-analysis/pull/119/

⚠️ Please note that all files in the module are not up to date as of filing. I was not prepared to tie up my computer any longer.

Reproducibility Checklist

[x] The dependencies required to run the code in this pull request have been added to the project Dockerfile.
[x] This analysis has been added to continuous integration.

Documentation Checklist

[x] This analysis module has a README and it is up to date.
[ ] This analysis is recorded in the table in analyses/README.md and the entry is up to date.
[x] The analytical code is documented and contains comments.