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conet's Introduction

CONET

About

CONET is a copy number event tree inference and copy number calling bayesian procedure from whole-genome DNA sequencing data.

CONET should be used with the aid of provided Python scripts. Examples and details are provided in two notebooks:

  • python/notebooks/biological_data/biological_data.ipynb
  • python/notebooks/synthetic_data/synthetic_data.ipynb

Requirements

Necessary

  • C++ compiler that supports C++14 standard
  • Python 3.0 or higher
  • GNU Make

Additional

  • R 4.0 or higher (for output plotting)

Installation

C++

git clone https://github.com/tc360950/CONET.git # Clone the repository
cd CONET/src
make                                          # Build the executables

Python wrapper

cd python/conet
pip install .

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