This code repository includes the tool from the published study Link, PDF:
CoLiDe: Combinatorial Library Design tool for probing protein sequence space
Tretyachenko V, Voráček V, Souček R, Fujishima K, and Hlouchová K.
Bioinformatics 2020
The source code is released under the MIT License. See the License file for details.
on the first use download and install miniconda 3.x from https://docs.conda.io/en/latest/miniconda.html
- open Anaconda prompt and run the command inside quotation marks "cd xxx", where xxx is the path to the directory with CoLiDe on first use run command inside quotation marks "conda install --file requirements.txt"
- run the command inside quotation marks "python gui.py"
A short version of a documentation follows. For the full documentation, follow this link.
The software was developed in the Klara Hlouchova Research Group, see http://khlab.org/.
For any question, you can contact vaclav.voracek@uni-tuebingen.de
If you use this codebase or any part of it for a publication, please cite:
@article{tretyachenko2020colide,
title={CoLiDe: Combinatorial Library Design tool for probing protein sequence space},
author={Tretyachenko, Vyacheslav and Vor{\'a}{\v{c}}ek, V{\'a}clav and Sou{\v{c}}ek, Radko and Fujishima, Kosuke and Hlouchov{\'a}, Kl{\'a}ra},
journal={Bioinformatics},
year={2020}
doi = {10.1093/bioinformatics/btaa804},
}