Examples of ForwardBackwardAlgorithmFactory

Examples of net.sourceforge.align.filter.aligner.align.hmm.fb.ForwardBackwardAlgorithmFactory

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    Counter counter = new SplitCounter();
    Calculator calculator =
      new PoissonDistributionCalculator(counter, alignmentList);
   
    HmmAlignAlgorithmFactory algorithmFactory =
      new ForwardBackwardAlgorithmFactory();
   
    AlignAlgorithm algorithm =
      new AdaptiveBandAlgorithm(algorithmFactory, calculator);
   
    Filter filter = new Aligner(algorithm);
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Examples of net.sourceforge.align.filter.aligner.align.hmm.fb.ForwardBackwardAlgorithmFactory

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    Counter counter = new CharCounter();
    Calculator calculator = new NormalDistributionCalculator(counter);
   
    HmmAlignAlgorithmFactory algorithmFactory =
      new ForwardBackwardAlgorithmFactory();
   
    AlignAlgorithm algorithm =
      new AdaptiveBandAlgorithm(algorithmFactory, calculator);
   
    filterList.add(new Aligner(algorithm));
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Examples of net.sourceforge.align.filter.aligner.align.hmm.fb.ForwardBackwardAlgorithmFactory

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    Calculator calculator =
      new TranslationCalculator(bestAlignmentList);

    HmmAlignAlgorithmFactory algorithmFactory =
      new ForwardBackwardAlgorithmFactory();
   
    AlignAlgorithm algorithm =
      new AdaptiveBandAlgorithm(algorithmFactory, calculator);

    Filter filter = new Aligner(algorithm);
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Examples of net.sourceforge.align.filter.aligner.align.hmm.fb.ForwardBackwardAlgorithmFactory

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    Counter counter = new SplitCounter();
    Calculator calculator =
      new PoissonDistributionCalculator(counter, alignmentList);
   
    HmmAlignAlgorithmFactory algorithmFactory =
      new ForwardBackwardAlgorithmFactory();
   
    AlignAlgorithm algorithm =
      new AdaptiveBandAlgorithm(algorithmFactory, calculator);
   
    filterList.add(new Aligner(algorithm));
View Full Code Here

Examples of net.sourceforge.align.filter.aligner.align.hmm.fb.ForwardBackwardAlgorithmFactory

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    calculatorList.add(new TranslationCalculator(bestAlignmentList));

    Calculator calculator = new CompositeCalculator(calculatorList);
   
    HmmAlignAlgorithmFactory algorithmFactory =
      new ForwardBackwardAlgorithmFactory();
   
    AlignAlgorithm algorithm =
      new AdaptiveBandAlgorithm(algorithmFactory, calculator);

    Filter filter = new Aligner(algorithm);
View Full Code Here

Examples of net.sourceforge.align.filter.aligner.align.hmm.fb.ForwardBackwardAlgorithmFactory

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    Counter counter = new SplitCounter();
    Calculator calculator =
      new PoissonDistributionCalculator(counter, alignmentList);
   
    HmmAlignAlgorithmFactory algorithmFactory =
      new ForwardBackwardAlgorithmFactory();
   
    AlignAlgorithm algorithm =
      new AdaptiveBandAlgorithm(algorithmFactory, calculator);
   
    Filter filter = new Aligner(algorithm); 
View Full Code Here

Examples of net.sourceforge.align.filter.aligner.align.hmm.fb.ForwardBackwardAlgorithmFactory

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    calculatorList.add(new TranslationCalculator(bestAlignmentList));

    Calculator calculator = new CompositeCalculator(calculatorList);
   
    HmmAlignAlgorithmFactory algorithmFactory =
      new ForwardBackwardAlgorithmFactory();
   
    AlignAlgorithm algorithm =
      new AdaptiveBandAlgorithm(algorithmFactory, calculator);

    Filter filter = new Aligner(algorithm);
View Full Code Here

Examples of net.sourceforge.align.filter.aligner.align.hmm.fb.ForwardBackwardAlgorithmFactory

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            AdaptiveBandAlgorithm.DEFAULT_BAND_INCREMENT_RATIO);
        HmmAlignAlgorithmFactory algorithmFactory;
        if (cls.equals("viterbi")) {
          algorithmFactory = new ViterbiAlgorithmFactory();
        } else if (cls.equals("fb")) {
          algorithmFactory = new ForwardBackwardAlgorithmFactory();
        } else {
          throw new UnknownParameterException("class");
        }
        algorithm = new AdaptiveBandAlgorithm(algorithmFactory,
            calculator, radius, increment, margin,
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