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Multicore and GPU Algorithms for Nussinov RNA Folding

We develop cache efficient, multicore, and GPU algorithms for RNA folding using Nussinov’s equations. Our cache efficient algorithm provides a speedup between 1.6 and 3.0 relative to a naive straightforward single core code. The multicore version of the cache efficient single core algorithm provides...

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Bibliografiske detaljer
Main Authors: Li, Junjie, Ranka, Sanjay, Sahni, Sartaj
Format: Artigo
Sprog:Inglês
Udgivet: 2013
Fag:
Online adgang:https://ncbi.nlm.nih.gov/pmc/articles/PMC3876873/
https://ncbi.nlm.nih.gov/pubmed/24385211
https://ncbi.nlm.nih.govhttp://dx.doi.org/10.1109/ICCABS.2013.6629204
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