tree-puzzle(1) [debian man page]

TREE-PUZZLE(1)						      General Commands Manual						    TREE-PUZZLE(1)

NAME

       tree-puzzle - Reconstruction of phylogenetic trees by maximum likelihood

SYNOPSIS

       tree-puzzle

DESCRIPTION

       This manual page documents briefly the tree-puzzle command.  This manual page was written for the Debian GNU/Linux distribution because the
       original program does not have a manual page.

       TREE-PUZZLE is the new name for the program previously known as PUZZLE!

       tree-puzzle is an interactive console program that implements a fast tree search algorithm, quartet puzzling, that allows analysis of large
       data  sets  and automatically assigns estimations of support to each internal branch. TREE-PUZZLE also computes pairwise maximum likelihood
       distances as well as branch lengths for user specified trees. Branch lengths can also be calculated under the  clock-assumption.  In  addi-
       tion, TREE-PUZZLE offers a novel method, likelihood mapping, to investigate the support of a hypothesized internal branch without computing
       an overall tree and to visualize the phylogenetic content of a sequence alignment.

       There is also a paralellized version tree-ppuzzle available.

OPTIONS

       There are no options. For usage please look at /usr/share/doc/tree-puzzle/tree-puzzle.pdf.

SEE ALSO

       phylip(1), treetool(1).	tree-ppuzzle(1).

       This manual page was written by Dr. Guenter Bechly <gbechly@debian.org>, for the Debian GNU/Linux system (but may be used by others).

								  April 20, 2001						    TREE-PUZZLE(1)

TREEVIEW 
X(1)							   User Manuals 						     TREEVIEW X(1)

NAME

       TreeView_X - displays and prints phylogenetic trees

SYNOPSIS

       tv [filename]

DESCRIPTION

       tv is the program that starts the TreeView X GUI.

       TreeView X is an open source and multi-platform program to display phylogenetic trees. It can read and display NEXUS and Newick format tree
       files (such as those output by PAUP*, ClustalX, TREE-PUZZLE, and other programs). It allows one to order the branches of the trees, and to
       export the trees in SVG format.

       If started from the command line with filename as an argument, TreeView X will open the tree stored in filename.

SEE ALSO

       At present there is is no documentation for TreeView X. In the meantime please see the online documentation for TreeView (remember that
       TreeView X has only a subset of the features of TreeView). http://taxonomy.zoology.gla.ac.uk/rod/treeview/treeview_manual.html

REFERENCE

       Page, R. D. M. 1996. TREEVIEW: An application to display phylogenetic trees on personal computers. Computer Applications in the Biosciences
       12: 357-358.

AUTHOR

       TreeView X was written by Rod Page (r.page@bio.gla.ac.uk) URL: http://darwin.zoology.gla.ac.uk/~rpage/treeviewx.

       This manual page was written by Charles Plessy (plessy@debian.org) for the Debian(TM) system (but may be used by others).

       Permission is granted to copy, distribute and/or modify TreeView X and this document under the terms of the GNU General Public License,
       Version 2 or any later version published by the Free Software Foundation.

       On Debian systems, the complete text of the GNU General Public License version 2 can be found in /usr/share/common-licenses/GPL-2.

TreeView X 0.5							    06/23/2011							     TREEVIEW X(1)