Package | Description |
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de.jstacs.sequenceScores.statisticalModels.trainable.mixture.motif | |
de.jstacs.sequenceScores.statisticalModels.trainable.mixture.motif.positionprior |
Modifier and Type | Field and Description |
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protected PositionPrior |
HiddenMotifMixture.posPrior
The prior for the positions.
|
Constructor and Description |
---|
HiddenMotifMixture(TrainableStatisticalModel[] models,
boolean[] optimzeArray,
int components,
int starts,
boolean estimateComponentProbs,
double[] componentHyperParams,
double[] weights,
PositionPrior posPrior,
AbstractMixtureTrainSM.Algorithm algorithm,
double alpha,
TerminationCondition tc,
AbstractMixtureTrainSM.Parameterization parametrization,
int initialIteration,
int stationaryIteration,
BurnInTest burnInTest)
Creates a new
HiddenMotifMixture . |
ZOOPSTrainSM(TrainableStatisticalModel motif,
TrainableStatisticalModel bg,
boolean trainOnlyMotifModel,
int starts,
double[] componentHyperParams,
double[] weights,
PositionPrior posPrior,
AbstractMixtureTrainSM.Algorithm algorithm,
double alpha,
TerminationCondition tc,
AbstractMixtureTrainSM.Parameterization parametrization,
int initialIteration,
int stationaryIteration,
BurnInTest burnInTest)
Creates a new
ZOOPSTrainSM . |
ZOOPSTrainSM(TrainableStatisticalModel motif,
TrainableStatisticalModel bg,
boolean trainOnlyMotifModel,
int starts,
double[] componentHyperParams,
PositionPrior posPrior,
double alpha,
TerminationCondition tc,
AbstractMixtureTrainSM.Parameterization parametrization)
Creates a new
ZOOPSTrainSM using EM and estimating
the probability for finding a motif. |
ZOOPSTrainSM(TrainableStatisticalModel motif,
TrainableStatisticalModel bg,
boolean trainOnlyMotifModel,
int starts,
double motifProb,
PositionPrior posPrior,
double alpha,
TerminationCondition tc,
AbstractMixtureTrainSM.Parameterization parametrization)
Creates a new
ZOOPSTrainSM using EM and fixed
probability for finding a motif. |
Modifier and Type | Class and Description |
---|---|
class |
GaussianLikePositionPrior
This class implements a gaussian like discrete truncated prior.
|
class |
UniformPositionPrior
This prior implements a uniform distribution for the start position.
|
Modifier and Type | Method and Description |
---|---|
PositionPrior |
PositionPrior.clone() |