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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 |
|_________________________________|________________________________________|
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