This is the PPM IndelFR predictors [1] for 11, 14 and 18 protein folds from different protein classes: All-alpha proteins, All-beta proteins and alpha and beta proteins (a/b), respectively.


Concordia University
Department of Electrical & Computer Engineering
Sir George William Campus
1515 St.Catherine West
Montreal, Quebec, Canada 
H3G 2W1
http://www.concordia.ca/encs/electrical-computer.html


The PPM IndelFR predictors, with memory length equal to 4,  are stored as MATLAB variables that can be easily loaded into MATLAB workspace. Amino acids are represented as integer values using MATLAB.

folder named "PPM IndelFR Predictors" contains subfolders as following:
Subfolder named "All Alpha Class Predictors": contains the predictors for all Alpha class protein.
Subfolder named "All Beta Class Predictors": contains the predictors for all Beta class protein.
Subfolder named "Alpha and Beta Class Predictors": contains the predictors for  Alpha and Beta Class protein.




If you have problems with, or questions about the suite, please contact
Mufleh Al-Shatnawi (m_alshat@ece.concordia.ca) 
and Prof. M. Omair Ahmad (omair@ece.concordia.ca)

If you use the PPM IndelFR predictors, please cite:

Al-Shatnawi, Mufleh, M. Omair Ahmad, and M. N. S. Swamy. "Prediction of Indel flanking regions in protein sequences using a variable-order Markov model." Bioinformatics, 31, 40-47, (2014). (doi: 10.1093/bioinformatics/btu556, http://bioinformatics.oxfordjournals.org/content/31/1/40.long).


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