.TH TREE-PUZZLE 1 "April 20, 2001".SH NAMEtree-puzzle \- Reconstruction of phylogenetic trees by maximum likelihood.SH SYNOPSIS.B tree-puzzle.RI.SH DESCRIPTIONThis manual page documents briefly the.B tree-puzzlecommand.This manual page was written for the Debian GNU/Linux distributionbecause the original program does not have a manual page..PPTREE-PUZZLE is the new name for the program previously known as PUZZLE!.PP\fBtree-puzzle\fP is an interactive console program that implements a fasttree search algorithm, quartet puzzling, that allows analysis of largedata sets and automatically assigns estimations of support to eachinternal branch. TREE-PUZZLE also computes pairwise maximum likelihooddistances as well as branch lengths for user specified trees. Branchlengths can also be calculated under the clock-assumption. Inaddition, TREE-PUZZLE offers a novel method, likelihood mapping, toinvestigate the support of a hypothesized internal branch withoutcomputing an overall tree and to visualize the phylogenetic content ofa sequence alignment..PPThere is also a paralellized version tree-ppuzzle available..SH OPTIONSThere are no options. For usage please look at /usr/share/doc/tree-puzzle/tree-puzzle.pdf..SH SEE ALSO.BR phylip (1),.BR treetool (1)..BR tree-ppuzzle (1)..PPThis manual page was written by Dr. Guenter Bechly <firstname.lastname@example.org>,for the Debian GNU/Linux system (but may be used by others).