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A memory-efficient dynamic programming algorithm for optimal alignment of a sequence to an RNA secondary structure

BACKGROUND: Covariance models (CMs) are probabilistic models of RNA secondary structure, analogous to profile hidden Markov models of linear sequence. The dynamic programming algorithm for aligning a CM to an RNA sequence of length N is O(N(3)) in memory. This is only practical for small RNAs. RESUL...

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Bibliografiske detaljer
Hovedforfatter: Eddy, Sean R
Format: Artigo
Sprog:Inglês
Udgivet: BioMed Central 2002
Fag:
Online adgang:https://ncbi.nlm.nih.gov/pmc/articles/PMC119854/
https://ncbi.nlm.nih.gov/pubmed/12095421
https://ncbi.nlm.nih.govhttp://dx.doi.org/10.1186/1471-2105-3-18
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