OpenMS  2.8.0
HiddenMarkovModel Member List

This is the complete list of members for HiddenMarkovModel, including all inherited members.

addNewState(HMMState *state)HiddenMarkovModel
addNewState(const String &name)HiddenMarkovModel
addSynonymTransition(const String &name1, const String &name2, const String &synonym1, const String &synonym2)HiddenMarkovModel
backward_HiddenMarkovModelprivate
calculateBackwardPart_()HiddenMarkovModelprotected
calculateEmissionProbabilities(Map< HMMState *, double > &emission_probs)HiddenMarkovModel
calculateForwardPart_()HiddenMarkovModelprotected
clear()HiddenMarkovModel
clearInitialTransitionProbabilities()HiddenMarkovModel
clearTrainingEmissionProbabilities()HiddenMarkovModel
copy_(const HiddenMarkovModel &source)HiddenMarkovModelprivate
count_trans_HiddenMarkovModelprivate
count_trans_all_HiddenMarkovModelprivate
disableTransition(const String &s1, const String &s2)HiddenMarkovModel
disableTransition_(HMMState *s1, HMMState *s2)HiddenMarkovModelprotected
disableTransitions()HiddenMarkovModel
dump()HiddenMarkovModel
enabled_trans_HiddenMarkovModelprivate
enableTransition(const String &s1, const String &s2)HiddenMarkovModel
enableTransition_(HMMState *s1, HMMState *s2)HiddenMarkovModelprotected
estimateUntrainedTransitions()HiddenMarkovModel
evaluate()HiddenMarkovModel
forward_HiddenMarkovModelprivate
forwardDump()HiddenMarkovModel
getBackwardVariable_(HMMState *)HiddenMarkovModelprotected
getForwardVariable_(HMMState *)HiddenMarkovModelprotected
getNumberOfStates() constHiddenMarkovModel
getPseudoCounts() constHiddenMarkovModel
getState(const String &name)HiddenMarkovModel
getState(const String &name) constHiddenMarkovModel
getTransitionProbability(const String &s1, const String &s2) constHiddenMarkovModel
getTransitionProbability_(HMMState *s1, HMMState *s2) constHiddenMarkovModelprotected
HiddenMarkovModel()HiddenMarkovModel
HiddenMarkovModel(const HiddenMarkovModel &hmm_new)HiddenMarkovModel
init_prob_HiddenMarkovModelprivate
name_to_state_HiddenMarkovModelprivate
operator=(const HiddenMarkovModel &)HiddenMarkovModel
pseudo_counts_HiddenMarkovModelprivate
setInitialTransitionProbability(const String &state, double prob)HiddenMarkovModel
setPseudoCounts(double pseudo_counts)HiddenMarkovModel
setTrainingEmissionProbability(const String &state, double prob)HiddenMarkovModel
setTrainingEmissionProbability_(HMMState *state, double prob)HiddenMarkovModelprotected
setTransitionProbability(const String &s1, const String &s2, double prob)HiddenMarkovModel
setTransitionProbability_(HMMState *s1, HMMState *s2, double prob)HiddenMarkovModelprotected
setVariableModifications(const StringList &modifications)HiddenMarkovModel
states_HiddenMarkovModelprivate
synonym_trans_HiddenMarkovModelprivate
synonym_trans_names_HiddenMarkovModelprivate
train()HiddenMarkovModel
train_count_trans_all_HiddenMarkovModelprivate
train_emission_prob_HiddenMarkovModelprivate
trained_trans_HiddenMarkovModelprivate
training_steps_count_HiddenMarkovModelprivate
trans_HiddenMarkovModelprivate
var_modifications_HiddenMarkovModelprivate
write(std::ostream &out) constHiddenMarkovModel
writeGraphMLFile(const String &filename)HiddenMarkovModel
~HiddenMarkovModel()HiddenMarkovModelvirtual