File: README

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njplot 2.4-7
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NJPLOT is a phylogenetic tree drawing program that handles Newick tree files, that is files describing trees by the nested parentheses method (e.g. PHYLIP-built trees).

Features:
A graphical interface allows to re-root a tree anywhere and to swap
branches.
Bootstrap values are displayed next to internal branches.
Branch lengths can be optionally displayed.
Tree plots can be printed or saved to a PostScript file.

Program unrooted draws trees in an unrooted, circular form.

Program newicktops uses no GUI and converts a Newick file into a postscript document. 
Usage:
newicktops  newick-file-name
or
newicktops -h      (to see program options)
The result goes to file newick-file-name.ps

Program newicktotxt uses no GUI and converts a Newick file into a pure 
text file where the tree is drawn with | and - characters.
Usage:
newicktotxt  newick-file-name
or
newicktotxt -h      (to see program options)
The result goes to file newick-file-name.txt

Program add_root reads a Newick tree file and roots it with the midpoint method,
that is at the point that minimizes the root-to-leaves variance. It does
no change if the input tree is already rooted.
Usage:
add_root newick-file-name
The result goes to stdout.


Please quote:
Perriere, G. & Gouy, M. (1996) WWW-Query: an on-line retrieval system for
biological sequence banks. Biochimie 78:364-369.
when publishing after njplot use.

 __________________________________________________________________________
| Manolo Gouy                                                              |  
| Laboratoire de biometrie, genetique et biologie des populations          |
| UMR CNRS 5558                   | E-MAIL : mgouy@biomserv.univ-lyon1.fr  |
| Universite C. Bernard - Lyon 1  | Tel    : +33 4-72-43-12-87             |
| 69622 Villeurbanne, France      | Fax    : +33 4-78-89-27-19             |
|_________________________________|________________________________________|