Clustal Omega  1.2.4
tree.h
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1 /*********************************************************************
2  * Clustal Omega - Multiple sequence alignment
3  *
4  * Copyright (C) 2010 University College Dublin
5  *
6  * Clustal-Omega is free software; you can redistribute it and/or
7  * modify it under the terms of the GNU General Public License as
8  * published by the Free Software Foundation; either version 2 of the
9  * License, or (at your option) any later version.
10  *
11  * This file is part of Clustal-Omega.
12  *
13  ********************************************************************/
14 
15 /*
16  * RCS $Id: tree.h 193 2011-02-07 15:45:21Z andreas $
17  */
18 
19 #ifndef CLUSTALO_TREE_H
20 #define CLUSTALO_TREE_H
21 
22 #include "symmatrix.h"
23 #include "muscle_tree.h"
24 #include "seq.h"
25 
27 
28 extern void
29 GuideTreeUpgma(tree_t **tree,
30  char **labels, symmatrix_t *tmat, char *ftree);
31 
32 extern int
34  mseq_t *mseq, char *ftree);
35 
36 extern void
37 TraverseTree(int **piOrderLR_p,
38  tree_t *tree, mseq_t *mseq);
39 
40 #endif
mseq_t
structure for storing multiple sequences
Definition: seq.h:47
DIFF_NODE
@ DIFF_NODE
Definition: tree.h:26
RGHT_NODE
@ RGHT_NODE
Definition: tree.h:26
seq.h
PRNT_NODE
@ PRNT_NODE
Definition: tree.h:26
symmatrix.h
muscle_tree.h
tree_t
guide-tree structure
Definition: muscle_tree.h:59
symmatrix_t
symmetric matrix structure
Definition: symmatrix.h:48
LEFT_NODE
@ LEFT_NODE
Definition: tree.h:26
GuideTreeFromFile
int GuideTreeFromFile(tree_t **tree, mseq_t *mseq, char *ftree)
Definition: tree.c:99
GuideTreeUpgma
void GuideTreeUpgma(tree_t **tree, char **labels, symmatrix_t *tmat, char *ftree)
Creates a UPGMA guide tree. This is a frontend function to the ported Muscle UPGMA code ().
Definition: tree.c:54
TraverseTree
void TraverseTree(int **piOrderLR_p, tree_t *tree, mseq_t *mseq)
Depth first traversal of tree, i.e. leaf nodes (sequences) will be visited first. Order can be used t...
Definition: tree.c:166