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.
|
Class and Description |
---|
MutationRateModel
This abstract class contains methods that are of general use for
modelling mutation rate changes over time.
|
Class and 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 MutationRAteModels
|
WindowedMutationRate
This class models a windowed mutation rate
(parameter: mu = mutation rate).
|
Class and 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
|
Class and 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
|
Class and Description |
---|
MutationRateModel
This abstract class contains methods that are of general use for
modelling mutation rate changes over time.
|