resp-protein-toolkit 0.1.1

Basic toolkit for common protein engineering tasks

resp_protein_toolkit

A toolkit designed to perform some common tasks in protein engineering, especially encoding protein sequences (in various formats), assisting in fitting uncertainty-aware models to data, and using a trained model to search for improved candidates using the RESP pipeline from Parkinson et al. 2023 (Nature Communications).

For an example of the full RESP pipeline, including uncertainty-aware model training, please see this repo.

Installation

pip install resp_protein_toolkit

Alternatively, to install from github, clone this repo, then from inside the resulting directory run:

pip install . --verbose

Usage

For usage and general guidelines, see the docs.

Citations

If using this toolkit in work intended for publication, please cite:

Parkinson, J., Hard, R. & Wang, W. The RESP AI model accelerates the identification of tight-binding antibodies. Nat Commun 14, 454 (2023).