Preoptem

Introduction

Preoptem is an open-source tool for predicting the optimal temperature of proteins based on the deep learning methods.

System requirement

1. Python 2.7
2. tensorflow 1.15.0
3. keras 2.1.5
4. theano 1.0.5
5. opencv-python 4.1.2.30

Quick Start to install the required program

1. Install the python 2.7 (from Anaconda https://www.anaconda.com/)
2. pip install tensorflow==1.15.0 (python=2.7)
3. pip install keras==2.1.5
4. pip install theano==1.0.5
5. pip install opencv-python==4.1.2.30
6. pip install matplotlib==2.2.5
7. git clone https://github.com/BRITian/Preoptem

Predict the sequence

The input sequences should be in the fasta format. The input command is as the followings. python Preoptem_keras_RNN_pre.py test_chi.fas

Result analysis

The output of the prediction is saved in the file of ./preoptem_pres/test_chi.fas.pred. The values in the first, second and third column in the file represented the Seq_id, Predicted_optimal_temperature, and Predicted_class.