A workflow for survival analysis of cancer patients from the Cancer Genome Atlas project. This survival analysis is based off of mRNA expression levels. This workflow is a modified implementation of a similar procedure described on biostars.org: https://www.biostars.org/p/153013/
The workflow is contained in the survival_analysis.ipynb
jupyter notebook.
- Python 3.6.7
- R 3.6.0
(language versions are probably flexible)
- Pandas
- rpy2
- Numpy
- glob
- DESeq2
- survival
- survminer