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zipHMMlib: a highly optimised HMM library exploiting repetitions in the input to speed up the forward algorithm

BACKGROUND: Hidden Markov models are widely used for genome analysis as they combine ease of modelling with efficient analysis algorithms. Calculating the likelihood of a model using the forward algorithm has worst case time complexity linear in the length of the sequence and quadratic in the number...

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Bibliographische Detailangaben
Veröffentlicht in:BMC Bioinformatics
Hauptverfasser: Sand, Andreas, Kristiansen, Martin, Pedersen, Christian NS, Mailund, Thomas
Format: Artigo
Sprache:Inglês
Veröffentlicht: BioMed Central 2013
Schlagworte:
Online Zugang:https://ncbi.nlm.nih.gov/pmc/articles/PMC4222747/
https://ncbi.nlm.nih.gov/pubmed/24266924
https://ncbi.nlm.nih.govhttp://dx.doi.org/10.1186/1471-2105-14-339
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