Test datasets: [Positive Test dataset] [Negative Test dataset]
Prediction results: [Positive Test dataset prediction results] [Negative Test dataset prediction results]
Standalone version of VirulentPred 2.0: virulentpred_2_0.tar.gz
Software prerequisites:
- Operating System (OS): Linux
- Python: version 3.8.5 or above (along with "xlwt" and "pandas" module installed)
- Perl: version 5.16.3 or above
- AutoGluon: version 0.4.0
Instructions to use the standalone version of VirulentPred 2.0 are:
- Extract and navigate to the VirulentPred 2.0 standalone directory:
(i) tar -zxvf virulentpred_2_0.tar.gz
(ii) cd virulentpred_2_0/
- Install AutoGluon (version 0.4.0; More help at AutoGluon 0.4.0 documentation):
pip3 install -U pip
pip3 install -U setuptools wheel
pip3 install torch==1.10.1+cpu -f https://download.pytorch.org/whl/cpu/torch_stable.html
pip3 install autogluon==0.4.0
- Install Python's "xlwt" module: pip3 install xlwt
- Install Python's "pandas" module: pip3 install pandas
- Run VirulentPred 2.0 with sample protein sequences or protein sequences of your interest: perl predict.pl sample_seq.fas