Cancer ASE driver identification (CASEDI)
Project description
Cancer ASE driver identification (CASEDI)
CASEDI is an analysis framework that uses tumor allele-specific expression (ASE) data to prioritize cancer driver genes. CASEDI includes functions to identify genes enriched for ASE between datasets, conduct ASE-stratified survival analysis, and identify genes showing ASE outlier expression.
Installation
The latest stable release can be installed from PyPI:
pip install casedi
You may instead want to use the development version from Github:
pip install git+https://https://github.com/maggietsui/casedi.git
Usage
Examples are available in the jupyter notebook examples/examples.ipynb.
Requirements
- pandas >= 1.3.1
- numpy >= 1.23.3
- scikit-survival
- scipy >= 1.9.1
- statsmodels >= 0.13.2
- matplotlib >= 3.4.2
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