SLPred Standalone Tool Installation
SLPred is a command-line prediction tool written in Python 3.7.1. SLPred was developed and tested in Ubuntu 20.04 LTS. Please make sure that you have Anaconda installed on your computer and run the below commands to install requirements. Dependencies are available in requirements.txt file.
conda create -n slpred_env python=3.7
conda activate slpred_envPreparation to run SLPred
- Clone the Git Repository from here.
- In terminal or command line navigate into SLPred folder.
- Then run the following commands.
pip install -r requirements.txt
chmod +x download_extract_data.sh
./download_extract_data.shInput file
- The input file must be located under input_files/fasta_files folder.
- It must be in fasta format.
- A sample is also given as input_files/fasta_files/input.fasta.
Explanation of Parameters
--file: this is the file name of the fasta file. For example if fasta file name is input.fasta, this argument must be just input.The command to run SLPred is as follows:
python run_SLPred.py --file inputOutput file
- The results (predictions) will be located under predictions folder with the name: input_predictions.csv.
- The prediction is indicated with 1 (positive) and 0 (negative) for the corresponding location in the output file.