Uses of Package
pal.coalescent

Packages that use pal.coalescent
pal.coalescent Classes to model population genetic processes using the coalescent. 
pal.eval Classes for evaluating evolutionary hypothesis (chi-square and likelihood criteria) and estimating model parameters. 
pal.supgma   
pal.xml Utility classes for converting PAL objects to and from XML documents. 
 

Classes in pal.coalescent used by pal.coalescent
CoalescentIntervals
          A series of coalescent intervals representing the time order information contained in a (serial) clock-constrained tree.
ConstantPopulation
          This class models coalescent intervals for a constant population (parameter: N0=present-day population size).
ConstExpGrowth
          This class models a population that grows exponentially from an inital population size alpha N0 to a present-day size N0.
DemographicModel
          This abstract class contains methods that are of general use for modelling coalescent intervals given a demographic model.
DemographicTree
          interface defining a parameterized tree that includes demographic information.
ExponentialGrowth
          This class models an exponentially growing (or shrinking) population (Parameters: N0=present-day population size; r=growth rate).
SerialCoalescentGenerator.Results
          A simple wrapper class for containing the results which may either be a number of trees, or a number of trees and alignments (in parallel arrays)
 

Classes in pal.coalescent used by pal.eval
CoalescentIntervals
          A series of coalescent intervals representing the time order information contained in a (serial) clock-constrained tree.
DemographicModel
          This abstract class contains methods that are of general use for modelling coalescent intervals given a demographic model.
 

Classes in pal.coalescent used by pal.supgma
DemographicModel
          This abstract class contains methods that are of general use for modelling coalescent intervals given a demographic model.
 

Classes in pal.coalescent used by pal.xml
DemographicModel
          This abstract class contains methods that are of general use for modelling coalescent intervals given a demographic model.