Clustal Omega
1.2.4
src
clustal
ktuple_pair.h
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/*********************************************************************
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* Clustal Omega - Multiple sequence alignment
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*
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* Copyright (C) 2010 University College Dublin
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*
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* Clustal-Omega is free software; you can redistribute it and/or
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* modify it under the terms of the GNU General Public License as
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* published by the Free Software Foundation; either version 2 of the
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* License, or (at your option) any later version.
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*
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* This file is part of Clustal-Omega.
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*
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********************************************************************/
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/*
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* RCS $Id: ktuple_pair.h 193 2011-02-07 15:45:21Z andreas $
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*/
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/* K-Tuple code for pairwise alignment (Wilbur and Lipman (1983)
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* Most code taken from showpair (Clustal 1.83)
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*/
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#ifndef CLUSTALO_KTUPLE_PAIR_H
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#define CLUSTALO_KTUPLE_PAIR_H
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#include "
seq.h
"
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#include "
symmatrix.h
"
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#include "
progress.h
"
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typedef
struct
{
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int
ktup
;
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int
window
;
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int
wind_gap
;
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int
signif
;
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}
ktuple_param_t
;
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extern
void
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KTuplePairDist
(
symmatrix_t
*tmat,
mseq_t
*mseq,
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int
istart,
int
iend,
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int
jstart,
int
jend,
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ktuple_param_t
*aln_param,
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progress_t
*prProgress,
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unsigned
long
int
*ulStepNo,
unsigned
long
int
ulTotalStepNo);
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#endif
ktuple_param_t::signif
int signif
Definition:
ktuple_pair.h:35
mseq_t
structure for storing multiple sequences
Definition:
seq.h:47
ktuple_param_t
Definition:
ktuple_pair.h:31
seq.h
ktuple_param_t::ktup
int ktup
Definition:
ktuple_pair.h:32
ktuple_param_t::wind_gap
int wind_gap
Definition:
ktuple_pair.h:34
symmatrix.h
progress_t
Definition:
progress.h:25
symmatrix_t
symmetric matrix structure
Definition:
symmatrix.h:48
KTuplePairDist
void KTuplePairDist(symmatrix_t *tmat, mseq_t *mseq, int istart, int iend, int jstart, int jend, ktuple_param_t *aln_param, progress_t *prProgress, unsigned long int *ulStepNo, unsigned long int ulTotalStepNo)
Definition:
ktuple_pair.c:625
progress.h
ktuple_param_t::window
int window
Definition:
ktuple_pair.h:33
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