Modules

• Bio::Phylo - Phylogenetic analysis using perl.
• Bio::Phylo::Forest - The forest object, a set of phylogenetic trees.
• Bio::Phylo::Forest::Node - The tree node object.
• Bio::Phylo::Forest::Tree - The tree object.
• Bio::Phylo::Generator - Generates random trees.
• Bio::Phylo::IO - Input and output of phylogenetic data.
• Bio::Phylo::Listable - Parent class for listable/iterator objects.
• Bio::Phylo::Matrices - Holds a set of matrix objects.
• Bio::Phylo::Matrices::Datum - The single observations object.
• Bio::Phylo::Matrices::Matrix - Character state matrix.
• Bio::Phylo::Parsers::Newick - Parses newick trees. No serviceable parts inside.
• Bio::Phylo::Parsers::Nexus - Parses nexus files. No serviceable parts inside.
• Bio::Phylo::Parsers::Table - Parses tab- (or otherwise) delimited matrices. No serviceable parts inside.
• Bio::Phylo::Parsers::Taxlist - Parses lists of taxon names. No serviceable parts inside.
• Bio::Phylo::Taxa - An object-oriented module for managing taxa.
• Bio::Phylo::Taxa::Taxon - The operational taxonomic unit.
• Bio::Phylo::Treedrawer - An object-oriented facade for drawing trees.
• Bio::Phylo::Treedrawer::Svg - Creates svg tree drawings. No serviceable parts inside.
• Bio::Phylo::Unparsers::Mrp - Unparses a forest object into an MRP matrix. No serviceable parts inside.
• Bio::Phylo::Unparsers::Newick - Unparses newick trees. No serviceable parts inside.
• Bio::Phylo::Unparsers::Nexus - Unparses nexus matrices. No serviceable parts inside.
• Bio::Phylo::Unparsers::Pagel - Unparses pagel data files. No serviceable parts inside.
• Bio::Phylo::Util::CONSTANT - This package defines global constants and utility functions that operate on them.
• Bio::Phylo::Util::Exceptions - Exception classes for Bio::Phylo. No serviceable parts inside.
• Bio::Phylo::Util::IDPool - Utility class for generating object IDs