This repository explores the effects of CNV/CNA (copy number variation/alteration) events in cancer datasets from the Clinical Proteomic Tumor Analysis Consortium (CPTAC). To view analysis, see the Python notebooks in the chr08/ directory. Other chromosomes coming soon.
We include a utility package called cnvutils that contains all the detailed code used in each step of the analysis. To use the tool, it must be installed using pip on the machine that is running the code. Here are the installation instructions:
- Clone this repository
- Open a terminal and navigate to the same directory that this README is stored in.
- Run the command
pip install cnvutils/. This will find the package setup information in thecnvutils/directory, and install the package in your currently active Python environment. - To access the package, simply add
import cnvutilsto your Python code.
This project is part of the Payne lab at Brigham Young University.