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## Uses of Class
de.jstacs.sequenceScores.statisticalModels.trainable.hmm.transitions.BasicHigherOrderTransition.AbstractTransitionElement

Packages that use BasicHigherOrderTransition.AbstractTransitionElement
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 BasicHigherOrderTransition.AbstractTransitionElement in de.jstacs.sequenceScores.statisticalModels.trainable.hmm

Methods in de.jstacs.sequenceScores.statisticalModels.trainable.hmm with parameters of type BasicHigherOrderTransition.AbstractTransitionElement
`protected void` | `AbstractHMM.initTransition(BasicHigherOrderTransition.AbstractTransitionElement... te)` This method creates the internal transition.

Uses of BasicHigherOrderTransition.AbstractTransitionElement in de.jstacs.sequenceScores.statisticalModels.trainable.hmm.models

Constructors in de.jstacs.sequenceScores.statisticalModels.trainable.hmm.models with parameters of type BasicHigherOrderTransition.AbstractTransitionElement
`HigherOrderHMM(HMMTrainingParameterSet trainingParameterSet, String[] name, Emission[] emission, BasicHigherOrderTransition.AbstractTransitionElement... te)` This is a convenience constructor.
`HigherOrderHMM(HMMTrainingParameterSet trainingParameterSet, String[] name, int[] emissionIdx, boolean[] forward, Emission[] emission, BasicHigherOrderTransition.AbstractTransitionElement... te)` This is the main constructor.

Uses of BasicHigherOrderTransition.AbstractTransitionElement in de.jstacs.sequenceScores.statisticalModels.trainable.hmm.transitions

Fields in de.jstacs.sequenceScores.statisticalModels.trainable.hmm.transitions declared as BasicHigherOrderTransition.AbstractTransitionElement
`protected BasicHigherOrderTransition.AbstractTransitionElement[]` | `BasicHigherOrderTransition.transitions` The internally used `BasicHigherOrderTransition.AbstractTransitionElement`s.

Methods in de.jstacs.sequenceScores.statisticalModels.trainable.hmm.transitions that return BasicHigherOrderTransition.AbstractTransitionElement
`BasicHigherOrderTransition.AbstractTransitionElement` | `BasicHigherOrderTransition.AbstractTransitionElement.clone()`

Methods in de.jstacs.sequenceScores.statisticalModels.trainable.hmm.transitions with parameters of type BasicHigherOrderTransition.AbstractTransitionElement
`void` | `BasicHigherOrderTransition.AbstractTransitionElement.joinStatistics(BasicHigherOrderTransition.AbstractTransitionElement... te)` This method joins the statistics of different instances and sets this joined statistic as statistic of each instance.
`void` | `BasicHigherOrderTransition.AbstractTransitionElement.setParameters(BasicHigherOrderTransition.AbstractTransitionElement t)` Set values of parameters of the instance to the value of the parameters of the given instance.

Constructors in de.jstacs.sequenceScores.statisticalModels.trainable.hmm.transitions with parameters of type BasicHigherOrderTransition.AbstractTransitionElement
`BasicHigherOrderTransition(boolean[] isSilent, BasicHigherOrderTransition.AbstractTransitionElement... transitions)` The main constructor.

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

Subclasses of BasicHigherOrderTransition.AbstractTransitionElement in de.jstacs.sequenceScores.statisticalModels.trainable.hmm.transitions.elements
`class` | `BasicPluginTransitionElement` Basic transition element without random initialization of parameters.
`class` | `BasicTransitionElement` This class implements the probability distribution for a given context, i.e. it contains all possible transition and the corresponding probabilities for a given set of previously visited states.
`class` | `DistanceBasedScaledTransitionElement` Distance-based scaled transition element for an HMM with distance-scaled transition matrices (DSHMM).
`class` | `ReferenceBasedTransitionElement` This class implements transition elements that utilize a reference sequence to determine the transition probability.
`class` | `ScaledTransitionElement` Scaled transition element for an HMM with scaled transition matrices (SHMM).
`class` | `TransitionElement` This class implements an transition element implements method used for training via sampling or gradient based optimization approach.

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