A Caltech Library Service

Pair hidden Markov models

Alexandersson, Marina and Bray, Nicolas and Pachter, Lior (2005) Pair hidden Markov models. In: Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics. Wiley , New York, NY, Art. No. 4:4.2:17. ISBN 9780470011539.

Full text is not posted in this repository. Consult Related URLs below.

Use this Persistent URL to link to this item:


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.

Item Type:Book Section
Related URLs:
URLURL TypeDescription
Pachter, Lior0000-0002-9164-6231
Additional Information:© 2005 John Wiley & Sons.
Subject Keywords:alignment; dynamic programming; evolutionary models; graphical models; pair hidden Markov models
Record Number:CaltechAUTHORS:20170308-113640795
Persistent URL:
Official Citation:Alexandersson, M., Bray, N. and Pachter, L. 2005. Pair hidden Markov models. Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics. 4:4.2:17.
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:74899
Deposited By: George Porter
Deposited On:08 Mar 2017 20:39
Last Modified:24 Feb 2020 10:30

Repository Staff Only: item control page