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view clustalomega/clustal-omega-1.0.2/src/clustal/pair_dist.h @ 1:bc707542e5de
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author | clustalomega |
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date | Thu, 21 Jul 2011 13:35:08 -0400 |
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/********************************************************************* * Clustal Omega - Multiple sequence alignment * * Copyright (C) 2010 University College Dublin * * Clustal-Omega 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 file is part of Clustal-Omega. * ********************************************************************/ /* * RCS $Id: pair_dist.h 193 2011-02-07 15:45:21Z andreas $ */ #ifndef CLUSTALO_PAIR_DIST_H #define CLUSTALO_PAIR_DIST_H #define PAIRDIST_UNKNOWN 0 /* k-tuple distances: Wilbur and Lipman (1983) */ #define PAIRDIST_KTUPLE 1 /* fractional identity between aligned sequences. denominator is * minimum seq len (see squid:aligneval.c) */ #define PAIRDIST_SQUIDID 2 /* SQUIDID + Kimura correction */ #define PAIRDIST_SQUIDID_KIMURA 3 #include "seq.h" #include "symmatrix.h" extern int PairDistances(symmatrix_t **distmat, mseq_t *mseq, const int pairdist_type, const int istart, const int iend, const int jstart, const int jend, char *fdist_in, char *fdist_out); #endif