RJE Module for protein sequence Markov Chain related gubbins
Copyright © 2005 Richard J. Edwards - See source code for GNU License Notice
See SLiMSuite Blog for further documentation. See
This module is designed to handle a number of things to do with amino acid frequencies and the like, including: - Observed and expected 1mer .. Xmer frequencies
Some old functions including 1mer .. Xmer counts per protein are now only found in V1.2.
## General ##
History Module Version History
# 0.0 - Initial Compilation. # 1.0 - Basic working model, with suffix tree # 1.1 - Added splitting. Committed to suffix tree. Removed autoload and suftree options. # 1.2 - Removed obs/exp calculation from output - can calculate it from frequencies. Removed redundant methods. # 2.0 - Added reverse reading of markov chains and general tidy up. Removed XCount method - use V1.2 for this. # 2.1 - Temp fixed suftree problem. Module needs a major overhaul! Still broken in places. # 2.2 - Minor modifications. Main methods still need checking/fixing.
© 2015 RJ Edwards. Contact: email@example.com.