Uses of Class
com.wcohen.ss.abbvGapsHmm.AbbvGapsHMM.Emissions

Packages that use AbbvGapsHMM.Emissions

Package	Description
com.wcohen.ss.abbvGapsHmm

Uses of AbbvGapsHMM.Emissions in com.wcohen.ss.abbvGapsHmm

Fields in com.wcohen.ss.abbvGapsHmm with type parameters of type AbbvGapsHMM.Emissions

Modifier and Type	Field and Description
AbbreviationAlignmentContainer<AbbvGapsHMM.Emissions,AbbvGapsHMM.States>	Acronym._alignment

Methods in com.wcohen.ss.abbvGapsHmm that return AbbvGapsHMM.Emissions

Modifier and Type	Method and Description
static AbbvGapsHMM.Emissions	AbbvGapsHMM.Emissions.valueOf(String name) Returns the enum constant of this type with the specified name.
static AbbvGapsHMM.Emissions[]	AbbvGapsHMM.Emissions.values() Returns an array containing the constants of this enum type, in the order they are declared.

Methods in com.wcohen.ss.abbvGapsHmm that return types with arguments of type AbbvGapsHMM.Emissions

Modifier and Type	Method and Description
AbbreviationAlignmentContainer<AbbvGapsHMM.Emissions,AbbvGapsHMM.States>	AbbvGapsHmmBackwardsViterbiEvaluator.backwardViterbiEvaluate(Acronym acronym, List<Double> transitionParams, List<Double> emissionParams)
AbbreviationAlignmentContainer<AbbvGapsHMM.Emissions,AbbvGapsHMM.States>	AbbvGapsHmmBackwardsViterbiEvaluator.findMostProbablePathBackwards(Acronym acronym)
AbbreviationAlignmentContainer<AbbvGapsHMM.Emissions,AbbvGapsHMM.States>	AlignmentPredictionModel.predict(String sf, String lf)
AbbreviationAlignmentContainer<AbbvGapsHMM.Emissions,AbbvGapsHMM.States>	AlignmentPredictionModel.predictAlignment(Acronym candidatePair)
AbbreviationAlignmentContainer<AbbvGapsHMM.Emissions,AbbvGapsHMM.States>	AbbvGapsHMM.viterbi(Acronym acronym)

Methods in com.wcohen.ss.abbvGapsHmm with parameters of type AbbvGapsHMM.Emissions

Modifier and Type	Method and Description
protected void	AbbvGapsHmmExpectationEvaluator.increaseCounter(AbbvGapsHMM.Emissions emission, double addition)
protected boolean	AbbvGapsHmmForwardEvaluator.transitionIsLegal(int currS, int currL, AbbvGapsHMM.States currState, int prevS, int prevL, AbbvGapsHMM.States prevState, AbbvGapsHMM.Transitions transition, AbbvGapsHMM.Emissions emission)
protected boolean	AbbvGapsHMMEvaluator.transitionIsLegal(int currS, int currL, AbbvGapsHMM.States currState, int prevS, int prevL, AbbvGapsHMM.States prevState, AbbvGapsHMM.Transitions transition, AbbvGapsHMM.Emissions emission)
protected boolean	AbbvGapsHmmBackwardsEvaluator.transitionIsLegal(int currS, int currL, AbbvGapsHMM.States currState, int prevS, int prevL, AbbvGapsHMM.States prevState, AbbvGapsHMM.Transitions transition, AbbvGapsHMM.Emissions emission)
protected void	AbbvGapsHmmForwardEvaluator.updateLegalOutgoingEdges(int currS, int currL, AbbvGapsHMM.States currState, int prevS, int prevL, AbbvGapsHMM.States prevState, AbbvGapsHMM.Transitions transition, AbbvGapsHMM.Emissions emission)
protected void	AbbvGapsHmmExpectationEvaluator.updateLegalOutgoingEdges(int currS, int currL, AbbvGapsHMM.States currState, int prevS, int prevL, AbbvGapsHMM.States prevState, AbbvGapsHMM.Transitions transition, AbbvGapsHMM.Emissions emission)
protected abstract void	AbbvGapsHMMEvaluator.updateLegalOutgoingEdges(int currS, int currL, AbbvGapsHMM.States currState, int prevS, int prevL, AbbvGapsHMM.States prevState, AbbvGapsHMM.Transitions transition, AbbvGapsHMM.Emissions emission)
protected void	AbbvGapsHmmBackwardsViterbiEvaluator.updateLegalOutgoingEdges(int currS, int currL, AbbvGapsHMM.States currState, int prevS, int prevL, AbbvGapsHMM.States prevState, AbbvGapsHMM.Transitions transition, AbbvGapsHMM.Emissions emission)
protected void	AbbvGapsHmmBackwardsEvaluator.updateLegalOutgoingEdges(int currS, int currL, AbbvGapsHMM.States currState, int prevS, int prevL, AbbvGapsHMM.States prevState, AbbvGapsHMM.Transitions transition, AbbvGapsHMM.Emissions emission)
protected void	AbbvGapsHMMEvaluator.updateOutgoingEdges(int currS, int currL, AbbvGapsHMM.States currState, int prevS, int prevL, AbbvGapsHMM.States prevState, AbbvGapsHMM.Transitions transition, AbbvGapsHMM.Emissions emission)
protected void	AbbvGapsHMMEvaluator.updateOutgoingEdgesStateD(int currS, int currL, int prevS, int prevL, AbbvGapsHMM.Emissions emission) Enumerates the possible transitions into state D.
protected void	AbbvGapsHMMEvaluator.updateOutgoingEdgesStateDL(int currS, int currL, int prevS, int prevL, AbbvGapsHMM.Emissions emission) Enumerates the possible transitions into state DL.
protected void	AbbvGapsHMMEvaluator.updateOutgoingEdgesStateEND(int currS, int currL, int prevS, int prevL, AbbvGapsHMM.Emissions emission) Enumerates the possible transitions into state END.
protected void	AbbvGapsHMMEvaluator.updateOutgoingEdgesStateM(int currS, int currL, int prevS, int prevL, AbbvGapsHMM.Emissions emission) Enumerates the possible transitions into state M.
protected void	AbbvGapsHMMEvaluator.updateState(AbbvGapsHMM.States s, int currS, int currL, int prevS, int prevL, AbbvGapsHMM.Emissions emission)