Uses of Package
Trees

Packages that use Trees

Package	Description
Alignments	Provides class for dealing with "alignments" and the sites in an alignment.
Ancestors	Provides classed to calculate ancestral reconstruction.
Likelihood	Provides classes for calculating the likelihood of a tree given a model and an alignment.
ModelTest
Simulations	Provides a class to create simulated data.
Trees	Provides classes to define a tree.

Classes in Trees used by Alignments

Class and Description
Tree Represents a phylogenetic tree.

Classes in Trees used by Ancestors

Class and Description
Tree Represents a phylogenetic tree.
TreeException Exception thrown when there is a problem with a tree

Classes in Trees used by Likelihood

Class and Description
Branch Represents a branch in a tree
Tree Represents a phylogenetic tree.
TreeException Exception thrown when there is a problem with a tree

Classes in Trees used by ModelTest

Class and Description
Tree Represents a phylogenetic tree.

Classes in Trees used by Simulations

Class and Description
Tree Represents a phylogenetic tree.
TreeException Exception thrown when there is a problem with a tree

Classes in Trees used by Trees

Class and Description
Branch Represents a branch in a tree
Split Represents a split
Tree Represents a phylogenetic tree.
TreeException Exception thrown when there is a problem with a tree