| Bio::Phylo::Parsers::Nexus - Parser used by Bio::Phylo::IO, no serviceable parts inside |
Bio::Phylo::Parsers::Nexus - Parser used by Bio::Phylo::IO, no serviceable parts inside
This module parses nexus files. It is called by the the Bio::Phylo::IO manpage module, there is no direct usage. The parser can handle files and strings with multiple tree, taxon, and characters blocks whose links are defined using Mesquite's "TITLE = 'some_name'" and "LINK TAXA = 'some_name'" tokens.
The parser returns a reference to an array containing one or more taxa, trees and matrices objects. Nexus comments are stripped, private nexus blocks (and the 'assumptions' block) are skipped. It currently doesn't handle 'mixed' data.
The nexus parser is called by the the Bio::Phylo::IO manpage object. Look there for examples of file parsing and manipulation.
Also see the manual: the Bio::Phylo::Manual manpage and http://rutgervos.blogspot.com.
$Id: Nexus.pm 1209 2010-02-18 13:58:45Z rvos $
| Bio::Phylo::Parsers::Nexus - Parser used by Bio::Phylo::IO, no serviceable parts inside |