Examples of be.ac.ulg.montefiore.run.jahmm.ViterbiCalculator

be.ac.ulg.montefiore.run.jahmm.ViterbiCalculator
This class can be used to compute the most probable state sequence matching a given observation sequence (given an HMM).

    int cnt = 0;
    String line;


    while ((line = br.readLine()) != null) {
      ArrayList<ObservationInteger> seq = taxo.obSeqWithBoundarySymbols(line.split(" "));
      double p = (new ViterbiCalculator(seq, this)).lnProbability();
      sumProb += Math.exp(p);
      sumLogProb += p;
      cnt++;
    }
    return sumLogProb;

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   * @param seq The sequence to be evaluated
   * @return The log probability of that sequence
   */
  public double viterbiCalculate(ArrayList<String> seq) {
    ArrayList<ObservationInteger> oSeq = taxo.obSeqWithBoundarySymbols(seq);
    ViterbiCalculator vc = new ViterbiCalculator(oSeq, this);
    return vc.lnProbability();
  }

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   * 
   * @param seq The sequence of symbols being evaluated
   * @return The most likely sequence of states to produce that sequence
   */
  public State[] viterbiPath(ArrayList<String> seq) {
    ViterbiCalculator vc = new ViterbiCalculator(taxo.obSeqWithBoundarySymbols(seq), this);
    int[] stateSequence = vc.stateSequence();
    State[] ms = new State[stateSequence.length];
    for (int i = 0; i < stateSequence.length; i++) {
      ms[i] = taxo.getState(stateSequence[i]);
    }
    return ms;

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