Uses of Package
pal.mep
-
Packages that use pal.mep Package Description 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 Class Description 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 Class Description 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 MutationRAteModelsWindowedMutationRate This class models a windowed mutation rate (parameter: mu = mutation rate). -
Classes in pal.mep used by pal.supgma Class Description 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 Class Description 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 Class Description MutationRateModel This abstract class contains methods that are of general use for modelling mutation rate changes over time.