/proseq2vec-ppi

Protein sequence embeddings for predicting protein-protein interactions.

Primary LanguagePythonOtherNOASSERTION

ProSeq2Vec

Protein sequence embeddings for predicting protein-protein interactions.

Downloading the benchmarking datasets

to download the benchmarking datasets you need to run the download script as follows:

sh ./scripts/download_data.sh

This will download and extract the hamp15, you14 and swissprot-ppi benchmarking datasets to the data directory.

Usage

Before using the proseq2vec-ppi model you will need to install the proseq2vec package. Also, if you want to use any of the benchmarking datasets wou need to download these benchmarks as shown in the previous sections.

There are multiple examples that demonstrate simple use cases for using the proseq2vec-ppi model to predict protein-protein interaction data in the examples directory, please check the basic example at ./examples/basic_example.py.