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131
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IPPS
2009
IEEE
15 years 10 months ago
2009
IEEE
In this paper we describe the parallelization of a dynamic programming algorithm used to find common RNA secondary structures including pseudoknots and similar structures. The se...
133
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IPPS
2009
IEEE
15 years 10 months ago
2009
IEEE
Computing large multiple protein sequence alignments using progressive alignment tools such as ClustalW requires several hours on state-of-the-art workstations. ClustalW uses a th...
139
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APPT
2009
Springer
15 years 10 months ago
2009
Springer
In this paper, a comprehensive performance review of an MPI-based high-order three-dimensional spectral element method C++ toolbox is presented. The focus is put on the performance...
152
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ICCS
2009
Springer
15 years 10 months ago
2009
Springer
We present a modular approach to realizing fine-grained adaptation of program behavior in a parallel environment. Using a compositional framework based on function call intercepti...
141
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COMPGEOM
2009
ACM
15 years 10 months ago
2009
ACM
Computers with multiple processor cores using shared memory are now ubiquitous. In this paper, we present several parallel geometric algorithms that specifically target this envi...