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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_HiddenMarkovModel [private]
calculateBackwardPart_()HiddenMarkovModel [protected]
calculateEmissionProbabilities(Map< HMMState *, DoubleReal > &emission_probs)HiddenMarkovModel
calculateForwardPart_()HiddenMarkovModel [protected]
clear()HiddenMarkovModel
clearInitialTransitionProbabilities()HiddenMarkovModel
clearTrainingEmissionProbabilities()HiddenMarkovModel
copy_(const HiddenMarkovModel &source)HiddenMarkovModel [private]
count_trans_HiddenMarkovModel [private]
count_trans_all_HiddenMarkovModel [private]
disableTransition(const String &s1, const String &s2)HiddenMarkovModel
disableTransition_(HMMState *s1, HMMState *s2)HiddenMarkovModel [protected]
disableTransitions()HiddenMarkovModel
dump()HiddenMarkovModel
enabled_trans_HiddenMarkovModel [private]
enableTransition(const String &s1, const String &s2)HiddenMarkovModel
enableTransition_(HMMState *s1, HMMState *s2)HiddenMarkovModel [protected]
estimateUntrainedTransitions()HiddenMarkovModel
evaluate()HiddenMarkovModel
forward_HiddenMarkovModel [private]
forwardDump()HiddenMarkovModel
getBackwardVariable_(HMMState *)HiddenMarkovModel [protected]
getForwardVariable_(HMMState *)HiddenMarkovModel [protected]
getNumberOfStates() const HiddenMarkovModel
getPseudoCounts() const HiddenMarkovModel
getState(const String &name)HiddenMarkovModel
getState(const String &name) const HiddenMarkovModel
getTransitionProbability(const String &s1, const String &s2) const HiddenMarkovModel
getTransitionProbability_(HMMState *s1, HMMState *s2) const HiddenMarkovModel [protected]
HiddenMarkovModel()HiddenMarkovModel
HiddenMarkovModel(const HiddenMarkovModel &hmm_new)HiddenMarkovModel
init_prob_HiddenMarkovModel [private]
name_to_state_HiddenMarkovModel [private]
operator=(const HiddenMarkovModel &)HiddenMarkovModel
pseudo_counts_HiddenMarkovModel [private]
setInitialTransitionProbability(const String &state, DoubleReal prob)HiddenMarkovModel
setPseudoCounts(DoubleReal pseudo_counts)HiddenMarkovModel
setTrainingEmissionProbability(const String &state, DoubleReal prob)HiddenMarkovModel
setTrainingEmissionProbability_(HMMState *state, DoubleReal prob)HiddenMarkovModel [protected]
setTransitionProbability(const String &s1, const String &s2, DoubleReal prob)HiddenMarkovModel
setTransitionProbability_(HMMState *s1, HMMState *s2, DoubleReal prob)HiddenMarkovModel [protected]
setVariableModifications(const StringList &modifications)HiddenMarkovModel
states_HiddenMarkovModel [private]
synonym_trans_HiddenMarkovModel [private]
synonym_trans_names_HiddenMarkovModel [private]
train()HiddenMarkovModel
train_count_trans_all_HiddenMarkovModel [private]
train_emission_prob_HiddenMarkovModel [private]
trained_trans_HiddenMarkovModel [private]
training_steps_count_HiddenMarkovModel [private]
trans_HiddenMarkovModel [private]
var_modifications_HiddenMarkovModel [private]
write(std::ostream &out) const HiddenMarkovModel
writeGraphMLFile(const String &filename)HiddenMarkovModel
~HiddenMarkovModel()HiddenMarkovModel [virtual]

OpenMS / TOPP release 1.10.0 Documentation generated on Thu Mar 7 2013 09:42:49 using doxygen 1.7.1