XnuFilt version 0.01
=======================

NAME:

XNU Filter


DESCRIPTION:


This is a C++ implementation of XNU filtering strategy proposed by Jean Michel Claverie 
and David J. States (1993), created for identifying and masking repetitive segments in 
amino acid sequences. 



SYNOPSIS:
    
    #include<string>
    #include<XNU.hpp>

    string ProtSeq = "VGRGVQIGSPHHHHHHHHHHPQPATYQTSGNLGVSYSHSSCGPSYGSQNFSAPYSPYALNQEADVSGGYPQCAPAVYSGNLSSPMVQHHHHHQGYAGGAVGSPQYIHHSYGQEHQSLALATYN";

/* Make object */

    /* Construction */
    XNU<int> Xnu;
    /*  OR  */
    XNU<int> Xnu(arg); // arg is : unordered_map<string, string>


/*  Functions */


    string mask = Xnu.Filter(ProtSeq);   
       //mask =   VGRGVQIGSPXXXXXXXXXXXXXATYQTSGNLGVSYSHSSCGPSYGSQNFSAPYSPYALNQEADVSGGYPQCAPAVYSGNLSSPMVXXXXXXXGYAGGAVGSPQYIHHSYGQEHQSLALATYN
  







CONSTRUCTION AND RUNTIME COMPLEXITY:


     -


ACKNOWLEDGMENTS:

     
Jean Michel Claverie & David J. States (1993) Computers and Chemistry
17: 191-201.


AUTHOR:

Robert Bakaric <rbakaric@irb.hr>, <bakaric@evolbio.mpg.de>

COPYRIGHT AND LICENSE:

 * Copyright 2015 Robert Bakaric
 * 
 * This program is free software; you can redistribute it and/or modify
 * it under the terms of the GNU General Public License as published by
 * the Free Software Foundation; either version 2 of the License, or
 * (at your option) any later version.
 * 
 * This program is distributed in the hope that it will be useful,
 * but WITHOUT ANY WARRANTY; without even the implied warranty of
 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 * GNU General Public License for more details.
 * 
 * You should have received a copy of the GNU General Public License
 * along with this program; if not, write to the Free Software
 * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston,
 * MA 02110-1301, USA.