Uses of Class
pal.misc.PalObjectListener.EventGenerator

Packages that use PalObjectListener.EventGenerator

pal.misc	Classes that don't fit elsewhere ;^)
pal.substmodel	Classes describing substitution models, i.e.

Uses of PalObjectListener.EventGenerator in pal.misc

Subclasses of PalObjectListener.EventGenerator in pal.misc

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)

Uses of PalObjectListener.EventGenerator in pal.substmodel

Subclasses of PalObjectListener.EventGenerator in pal.substmodel

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.