Package Ancestors

Provides classed to calculate ancestral reconstruction.

See: Description

Class Summary

Class	Description
AncestralJoint	Abstract class that the two different ways of doing ancestral reconstruction extend.
AncestralJointBB	Class to perform joint ancestral reconstrion using the method of Pupko 2002 slightly modified
AncestralJointDP	Class to perform joint ancestral reconstruction using the method of Pupko 2000
AncestralMarginal	Class to perform marginal reconstruction of internal nodes.
Assignment	Stores the ancestral reconstruction assignment for a single site

Exception Summary

Exception	Description
AncestralException	Exception related to ancestral reconstruction

Package Ancestors Description

Provides classed to calculate ancestral reconstruction. Classes are avaliable to do either joint or marginal reconstruction.