Awesome coevolution stuff
Project description
COCOA-Tree: COllaborative COevolution Analysis Toolbox
COCOA-Tree is a Python library to perform coevolution analyses of proteins and integrate phylogenetic information to better understand the coevolution signals.
It regroups various coevolution metrics and corrections, such as statistical coevolution analysis (SCA) or mutual information (MI).
Website: tree-bioinfo-intra.timc.fr/projects/cocoa/
Library organization
COCOA-Tree is organized in several modules, each allowing to perform different tasks of a coevolution analysis pipeline:
Installation
Dependencies
COCOA-Tree requires:
- Python (>= 3.9)
- NumPy
- scikit-learn
- biopython
- ete3
Matplotlib is also required for running the examples.
User installation
To install for development purposes, use::
python setup.py develop
All changes in the python module will be repercuted on the installed version (in practice the installed version is a symlink towards the package in development).
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