Class DemographicClockTree

All Implemented Interfaces:
Serializable, DemographicTree, IdGroup, Parameterized, Units, UnitsProvider, ParameterizedTree, Tree

public class DemographicClockTree extends ClockTree implements DemographicTree
Provides parameter interface to a clock-like genealogy which is assumed to have some demographic pattern of theta (diversity) as well as branch parameters (the minimal node height differences at each internal node). Must be used in conjunction with DemographicLikelihoodFunction!
Author:
Alexei Drummond
See Also:
  • Constructor Details

    • DemographicClockTree

      public DemographicClockTree(Tree t, DemographicModel model)
      take any tree and afford it with an interface suitable for a clock-like genealogy, under a certain demographic assumption.

      This parameterisation of branches, ensuring that all parameters are independent of each other is due to Andrew Rambaut (personal communication).

  • Method Details