Uses of Package
pal.coalescent
Packages that use pal.coalescent
Package
Description
Classes to model population genetic processes using the coalescent.
Classes for evaluating evolutionary hypothesis (chi-square and likelihood
criteria) and estimating model parameters.
Utility classes for converting PAL objects to and from XML documents.
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Classes in pal.coalescent used by pal.coalescentClassDescriptionA series of coalescent intervals representing the time order information contained in a (serial) clock-constrained tree.This class models coalescent intervals for a constant population (parameter: N0=present-day population size).This class models a population that grows exponentially from an inital population size alpha N0 to a present-day size N0.This abstract class contains methods that are of general use for modelling coalescent intervals given a demographic model.interface defining a parameterized tree that includes demographic information.This class models an exponentially growing (or shrinking) population (Parameters: N0=present-day population size; r=growth rate).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)
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Classes in pal.coalescent used by pal.evalClassDescriptionA series of coalescent intervals representing the time order information contained in a (serial) clock-constrained tree.This abstract class contains methods that are of general use for modelling coalescent intervals given a demographic model.
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Classes in pal.coalescent used by pal.supgmaClassDescriptionThis abstract class contains methods that are of general use for modelling coalescent intervals given a demographic model.
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Classes in pal.coalescent used by pal.xmlClassDescriptionThis abstract class contains methods that are of general use for modelling coalescent intervals given a demographic model.