TMP-SSurface-2.0

A Deep Learning-Based Predictor for Surface Accessibility of Transmembrane Protein Residues.

Download data

We provide the test dataset used in this study, you can download test.fasta to evaluate our method.

Quick Start

Requirements

• Python ≥ 3.6
• Tensorflow and Keras
• Psi-Blast for generating PSSM files

Testing & Evaluation in Command Line

We provide run.py that is able to run pre-trained models. Run it with:

python run.py -f sample/sample.fasta -p sample/pssm/ -o results/

• To set the path of fasta file, use --fasta or -f.
• To set the path of generated PSSM files, use --pssm_path or -p.
• To save outputs to a directory, use --output or -o.

Progress

• README for running TMP-SSurface-2.0.