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» Accelerated costas array enumeration using FPGAs
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CISS
2008
IEEE
13 years 11 months ago
Accelerated costas array enumeration using FPGAs
Abstract— Costas array enumeration is an NP-complete problem with a highly parallelize-able solution. This paper examines the implementation of a solution to this problem on an F...
Jim Devlin, Scott Rickard
CISS
2008
IEEE
13 years 11 months ago
Costas permutations in the continuum
—We extend the definition of the Costas property to functions in the continuum, namely on intervals of the reals or the rationals, and argue that such functions can be used in t...
Konstantinos Drakakis, Scott Rickard
IPPS
2009
IEEE
13 years 11 months ago
Accelerating HMMer on FPGAs using systolic array based architecture
HMMer is a widely-used bioinformatics software package that uses profile HMMs (Hidden Markov Models) to model the primary structure consensus of a family of protein or nucleic aci...
Yanteng Sun, Peng Li, Guochang Gu, Yuan Wen, Yuan ...
ASAP
2008
IEEE
186views Hardware» more  ASAP 2008»
13 years 11 months ago
Accelerating Nussinov RNA secondary structure prediction with systolic arrays on FPGAs
RNA structure prediction, or folding, is a computeintensive task that lies at the core of several search applications in bioinformatics. We begin to address the need for high-thro...
Arpith C. Jacob, Jeremy Buhler, Roger D. Chamberla...
FPL
2008
Springer
150views Hardware» more  FPL 2008»
13 years 6 months ago
Compiler generated systolic arrays for wavefront algorithm acceleration on FPGAs
Wavefront algorithms, such as the Smith-Waterman algorithm, are commonly used in bioinformatics for exact local and global sequence alignment. These algorithms are highly computat...
Betul Buyukkurt, Walid A. Najjar