ensemble epistasis engine
In a terminal, type
git clone https://github.com/harmslab/eee.git
cd eee
conda env create -f environment.yml
conda activate eee
python setup.py install
To use the sync_structures script/module, make sure you have the following other packages installed and in the path.
- lovoalign: https://www.ime.unicamp.br/~martinez/lovoalign/software.html
- muscle: https://www.drive5.com/muscle/
- foldx: https://foldxsuite.crg.eu
See the examples directory for example jupyter notebooks.
- numpy
- pandas
- matplotlib
- tqdm
- pytest
- ete3
- scikit-learn
- muscle
- foldx
- lovoalign