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