Uses of Class
de.jstacs.sequenceScores.statisticalModels.trainable.hmm.transitions.elements.TransitionElement

Packages that use TransitionElement

de.jstacs.sequenceScores.statisticalModels.trainable.hmm	The package provides all interfaces and classes for a hidden Markov model (HMM).
de.jstacs.sequenceScores.statisticalModels.trainable.hmm.models	The package provides different implementations of hidden Markov models based on AbstractHMM
de.jstacs.sequenceScores.statisticalModels.trainable.hmm.transitions	The package provides all interfaces and classes for transitions used in hidden Markov models.
de.jstacs.sequenceScores.statisticalModels.trainable.hmm.transitions.elements

Uses of TransitionElement in de.jstacs.sequenceScores.statisticalModels.trainable.hmm

Methods in de.jstacs.sequenceScores.statisticalModels.trainable.hmm that return TransitionElement

static TransitionElement[]

HMMFactory.createTransition(double[][] hyperParams, ArrayList<HMMFactory.PseudoTransitionElement> list) Creates the real TransitionElements that can be used to create the HMM.

Uses of TransitionElement in de.jstacs.sequenceScores.statisticalModels.trainable.hmm.models

Constructors in de.jstacs.sequenceScores.statisticalModels.trainable.hmm.models with parameters of type TransitionElement

DifferentiableHigherOrderHMM(MaxHMMTrainingParameterSet trainingParameterSet, String[] name, int[] emissionIdx, boolean[] forward, DifferentiableEmission[] emission, boolean likelihood, double ess, TransitionElement... te)
This is the main constructor.

SamplingHigherOrderHMM(SamplingHMMTrainingParameterSet trainingParameterSet, String[] name, int[] emissionIdx, boolean[] forward, SamplingEmission[] emission, TransitionElement... te)
This is the main constructor.

SamplingPhyloHMM(SamplingHMMTrainingParameterSet trainingParameterSet, String[] name, int[] emissionIdx, boolean[] forward, PhyloDiscreteEmission[] emission, TransitionElement... te)
This is the main constructor for a hidden markov model with phylogenetic emission(s) This model can be trained using a metropolis hastings algorithm

Uses of TransitionElement in de.jstacs.sequenceScores.statisticalModels.trainable.hmm.transitions

Constructors in de.jstacs.sequenceScores.statisticalModels.trainable.hmm.transitions with parameters of type TransitionElement

HigherOrderTransition(boolean[] isSilent, TransitionElement... transitions)
The main constructor.

Uses of TransitionElement in de.jstacs.sequenceScores.statisticalModels.trainable.hmm.transitions.elements

Methods in de.jstacs.sequenceScores.statisticalModels.trainable.hmm.transitions.elements that return TransitionElement

TransitionElement

TransitionElement.clone()