Two Methods for Improving Performance of a HMM and their Application for Gene Finding

@article{Krogh1997TwoMF,
  title={Two Methods for Improving Performance of a HMM and their Application for Gene Finding},
  author={Anders Krogh},
  journal={Proceedings. International Conference on Intelligent Systems for Molecular Biology},
  year={1997},
  volume={5},
  pages={179-86}
}
A hidden Markov model for gene finding consists of submodels for coding regions, splice sites, introns, intergenic regions and possibly more. It is described how to estimate the model as a whole from labeled sequences instead of estimating the individual parts independently from subsequences. It is argued that the standard maximum likelihood estimation criterion is not optimal for training such a model. Instead of maximizing the probability of the DNA sequence, one should maximize the… CONTINUE READING

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