Cache-Oblivious parallel SIMD Viterbi decoding for sequence search in HMMER

BACKGROUND: HMMER is a commonly used bioinformatics tool based on Hidden Markov Models (HMMs) to analyze and process biological sequences. One of its main homology engines is based on the Viterbi decoding algorithm, which was already highly parallelized and optimized using Farrar’s striped processin...

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Detalles Bibliográficos
Autores principales: Ferreira, Miguel, Roma, Nuno, Russo, Luis MS
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2014
Materias:
Methodology Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4229909/
https://www.ncbi.nlm.nih.gov/pubmed/24884826
http://dx.doi.org/10.1186/1471-2105-15-165

Internet

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4229909/
https://www.ncbi.nlm.nih.gov/pubmed/24884826
http://dx.doi.org/10.1186/1471-2105-15-165

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