Uses of Package
pal.mep

Packages that use pal.mep
pal.coalescent Classes to model population genetic processes using the coalescent. 
pal.mep Classes for the analysis of "measurably evolving populations" (mep). 
pal.supgma   
pal.tree Classes for providing the data structure of trees, for constructing and modifying trees, and for parameterizing trees (e.g., clock constraint). 
pal.xml Utility classes for converting PAL objects to and from XML documents. 
 

Classes in pal.mep used by pal.coalescent
MutationRateModel
          This abstract class contains methods that are of general use for modelling mutation rate changes over time.
 

Classes in pal.mep used by pal.mep
ConstantMutationRate
          This class models a constant mutation rate (parameter: mu = mutation rate).
DeltaModel
           
DeltaModel.Instance
           
MutationRateModel
          This abstract class contains methods that are of general use for modelling mutation rate changes over time.
MutationRateModel.Factory
          An interface for objects which generate fresh MutationRAteModels
WindowedMutationRate
          This class models a windowed mutation rate (parameter: mu = mutation rate).
 

Classes in pal.mep used by pal.supgma
DeltaModel
           
MutationRateModel
          This abstract class contains methods that are of general use for modelling mutation rate changes over time.
MutationRateModel.Factory
          An interface for objects which generate fresh MutationRAteModels
 

Classes in pal.mep used by pal.tree
MutationRateModel
          This abstract class contains methods that are of general use for modelling mutation rate changes over time.
MutationRateModel.Factory
          An interface for objects which generate fresh MutationRAteModels
 

Classes in pal.mep used by pal.xml
MutationRateModel
          This abstract class contains methods that are of general use for modelling mutation rate changes over time.