run_local.sh *.seq to obtain predicted secondary structure, ASA, backbone torsion angles.
If you already have pssm files for your proteins.
run_pssm.py *.pssm The output will be seen in *.spd3
Reference:
- R. Heffernan, K. Paliwal, J. Lyons, A. Dehzangi, A. Sharma, J. Wang, A. Sattar, Yuedong Yang* and Y. Zhou*. Improving predi ction of secondary structure, local backbone angles, and solvent accessible surface area of proteins by iterative deep learnin g. Scientific Reports 2015; 5:11476
- R. Heffernan, K. Paliwal, J. Lyons, A. Dehzangi, A. Sharma, J. Wang, A. Sattar, Y. Zhou* and Yuedong Yang*. Highly accurate sequence-based prediction of half-sphere exposures of amino acid residues in proteins. Bioinformatics 2016; 32(6):843-9.
If you have any questions, please email to yuedong.yang AT gmail.com