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CONSENSE

CONSENSE reads a file of computer-readable trees and prints out  (and  may also  write  out onto a file) a consensus tree.  At the moment it carries out a family of consensus tree methods called the Ml (M-sub-L) methods  (Margush  and McMorris,  1981).   These include strict consensus and majority rule consensus. Basically the consensus tree consists of  monophyletic  groups  that  occur  as often  as  possible in the data.  If a group occurs in more than 50% of all the input trees it will definitely appear in the consensus tree. Part of Phylip.

© Copyright 1991-2006 by the University of Washington. Written by Joseph Felsenstein. Edited by NGBW team.

Manual: http://evolution.genetics.washington.edu/phylip/doc/consense.html

INPUT = Phylogenetic Trees in Newick format.

TEST SET OF INPUT TREES

(A,(B,(H,(D,(J,(((G,E),(F,I)),C))))));
(A,(B,(D,((J,H),(((G,E),(F,I)),C)))));
(A,(B,(D,(H,(J,(((G,E),(F,I)),C))))));
(A,(B,(E,(G,((F,I),((J,(H,D)),C))))));
(A,(B,(E,(G,((F,I),(((J,H),D),C))))));
(A,(B,(E,((F,I),(G,((J,(H,D)),C))))));
(A,(B,(E,((F,I),(G,(((J,H),D),C))))));
(A,(B,(E,((G,(F,I)),((J,(H,D)),C)))));
(A,(B,(E,((G,(F,I)),(((J,H),D),C)))));

TEST SET OUTPUT

Consensus tree program, version 3.6

Species in order:            

  1. A
  2. B
  3. H
  4. D
  5. J
  6. G
  7. E
  8. F
  9. I
 10. C

Sets included in the consensus tree

Set (species in order)     How many times out of    9.00

.......**.                   9.00
..********                   9.00
..****.***                   6.00
..***.....                   6.00
..***....*                   6.00
..*.*.....                   4.00
..***..***                   2.00

Sets NOT included in consensus tree:
Set (species in order)     How many times out of    9.00
.....**...                   3.00
.....*****                   3.00
..**......                   3.00
.....****.                   3.00
..****...*                   2.00
.....*.**.                   2.00
..*.******                   2.00
....******                   2.00
...*******                   1.00

Extended majority rule consensus tree
CONSENSUS TREE:
the numbers on the branches indicate the number
of times the partition of the species into the two sets
which are separated by that branch occurred
among the trees, out of   9.00 trees           

                                     +--------------------C
                                     |
                              +--6.0-|             +------H
                              |      |      +--4.0-|
                              |      +--6.0-|      +------J
                       +--2.0-|             |
                       |      |             +-------------D
                       |      |
                +--6.0-|      |                    +------F
                |      |      +----------------9.0-|
                |      |                           +------I
         +--9.0-|      |
         |      |      +----------------------------------G
  +------|      |
  |      |      +-----------------------------------------E
  |      |
  |      +------------------------------------------------B
  |
  +-------------------------------------------------------A

  remember: this is an unrooted tree!

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