Module:Bio::TreeIO
From BioPerl
| Pdoc documentation: Bio::TreeIO | CPAN documentation: Bio::TreeIO |
|---|
This module is a factory for reading and writing phylogentic trees. Several of the formats supported include
| Format | Driver module | Description |
|---|---|---|
| Newick tree format | Bio::TreeIO::newick | also known as New Hampshire format |
| Nexus tree format | Bio::TreeIO::nexus | NEXUS format from PAUP and MrBayes |
| New Hampshire extended tree format | Bio::TreeIO::nhx | Christian Zmeck's format for ATV and Forester |
| Lintree tree format | Bio::TreeIO::lintree | Lintree format |
| Treecluster tree format | Bio::TreeIO::treecluster | Algorithm::Cluster::treecluster format |
| Pagel tree format | Bio::TreeIO::pag | Pagel format for Discrete (This module may not totally work!) |
| Tab tree format | Bio::TreeIO::tab | Jason Stajich's somewhat arbitrary tree visualization format (output only) |
| SVG tree format | Bio::TreeIO::svggraph | Allen Day's SVG output format |
