Uses of Class pal.misc.PalObjectListener.EventGenerator

Packages that use PalObjectListener.EventGenerator
Package	Description
pal.misc	Classes that don't fit elsewhere ;^)
pal.substmodel	Classes describing substitution models, i.e.

Subclasses of PalObjectListener.EventGenerator in pal.misc
Modifier and Type	Class	Description
`static class`	`Parameterized.ParameterizedBase`	A Utility class for using as the superclass to subclasses which are based on double arrays
`static class`	`Parameterized.ParameterizedUser`	A Utility class for using as the superclass to subclasses which work by adding functionality to a general Parameterized object (the base Parameterized object)

Subclasses of PalObjectListener.EventGenerator in pal.substmodel
Modifier and Type	Class	Description
`class`	`GammaRates`	discrete Gamma distribution (Z.
`class`	`GeneralRateDistributionSubstitutionModel`
`class`	`InvariableSites`	invariable sites model (two-rate model with mean rate = 1.0)
`class`	`RateDistribution`	abstract base class for models of rate variation over sites employing a discrete rate distribution
`class`	`SingleClassSubstitutionModel`
`class`	`UniformRate`	uniform rate distribution
`static class`	`YangCodonModel.SimpleNeutralSelection`	A Substitution Model which can be used to implment the Neutral Model (with out continuous rate stuff) Codon model of [1] which uses the weighted sum of trwo base YangCodon models where omega=0, omega=1 repectively [1] Nielsen, R., Yang Z., 1998 Likelihood Models for Detecting Positively Selected Amino Acid Sites and Applications to the HIV-1 Envelope Gene.
`static class`	`YangCodonModel.SimplePositiveSelection`	A Substitution Model which can be used to implment the Postitive Selection (with out continuous rate stuff) Codon model of [1] which uses the weighted sum of a three base Codon model where omega=0, omega=1 and omega=free [1] Nielsen, R., Yang Z., 1998 Likelihood Models for Detecting Positively Selected Amino Acid Sites and Applications to the HIV-1 Envelope Gene.

Uses of Classpal.misc.PalObjectListener.EventGenerator