Pair hidden Markov models
2005
We describe pair hidden Markov models, with an emphasis on their relationship to evolutionary models and hidden Markov models. We then explain the statistical interpretation of alignment with pair hidden Markov models, and highlight connections to the Needleman–Wunsch algorithm and other dynamic programming–based alignment algorithms.
Keywords:
- Maximum-entropy Markov model
- Viterbi algorithm
- Markov algorithm
- Markov model
- Machine learning
- Variable-order Bayesian network
- Hidden semi-Markov model
- Hidden Markov model
- Artificial intelligence
- Mathematics
- Variable-order Markov model
- Pattern recognition
- Forward algorithm
- Computer science
- Theoretical computer science
- Markov chain
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