ProtY 1.3

The project is about using a pretrained protein transformer architecture to create embeddings of various proteins, and then performing nonlinear dimensionality reduction on those embeddings to see which kinds of similarities in protein function/structure we can restore

Peptide sequence embedding and clustering/visualization

The project is about using a pretrained protein transformer architecture to create embeddings of various proteins, and then performing nonlinear dimensionality reduction on those embeddings to see which kinds of similarities in protein function/structure we can restore.

Installation

Install ProtY using pip

pip install ProtY

Clone the git repository

git clone https://github.com/uhlarbrigi/PEPTIDE-SEQUENCE-EMBEDDING-AND-CLUSTERING-VISUALIZATION.git

Change directory to the cloned repository

cd pyPCG-tooblox

Install with pip

pip install .

Building the documentation

Install required packages

pip install -r docs/requirements.txt

Call Sphinx build command

sphinx-build -M html docs/source docs/build

On Windows you can also run the make.bat file

.\docs\make.bat html

Correspondence

Brigitta Uhlár Dominik Galló Bence Csapó