1 /* This the fast UPGMA algorithm (O(N^2)) as implemented in Bob Edgar's
2 * Muscle (UPGMA2.cpp; version 3.7) ported to pure C.
4 * Muscle's code is public domain and so is this code here.
6 * From http://www.drive5.com/muscle/license.htm:
8 * MUSCLE is public domain software
10 * The MUSCLE software, including object and source code and
11 * documentation, is hereby donated to the public domain.
13 * Disclaimer of warranty
14 * THIS SOFTWARE IS PROVIDED "AS IS" WITHOUT WARRANTY OF ANY KIND,
15 * EITHER EXPRESS OR IMPLIED, INCLUDING WITHOUT LIMITATION IMPLIED
16 * WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
22 * RCS $Id: muscle_upgma.h 193 2011-02-07 15:45:21Z andreas $
25 #ifndef CLUSTALO_UPGMA_H
26 #define CLUSTALO_UPGMA_H
28 #include "symmatrix.h"
29 #include "muscle_tree.h"
35 LINKAGE_NEIGHBORJOINING,
38 typedef enum linkage_e linkage_t;
40 void MuscleUpgma2(tree_t *tree, symmatrix_t *distmat,
41 linkage_t linkage, char **names);