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» An Experimental Analysis of Parallel
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IPPS
2009
IEEE
14 years 2 months ago
Dynamic parallelization for RNA structure comparison
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...
Eric Snow, Eric Aubanel, Patricia Evans
IPPS
2009
IEEE
14 years 2 months ago
Parallel reconstruction of neighbor-joining trees for large multiple sequence alignments using CUDA
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...
Yongchao Liu, Bertil Schmidt, Douglas L. Maskell
COMPGEOM
2009
ACM
14 years 2 months ago
Parallel geometric algorithms for multi-core computers
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...
Vicente H. F. Batista, David L. Millman, Sylvain P...
ICPP
2008
IEEE
14 years 2 months ago
Parallel Inferencing for OWL Knowledge Bases
Abstract— We examine the problem of parallelizing the inferencing process for OWL knowledge-bases. A key challenge in this problem is partitioning the computational workload of t...
Ramakrishna Soma, Viktor K. Prasanna
ICPP
2007
IEEE
14 years 2 months ago
SOR: A Static File Assignment Strategy Immune to Workload Characteristic Assumptions in Parallel I/O Systems
The problem of statically assigning nonpartitioned files in a parallel I/O system has been extensively investigated. A basic workload characteristic assumption of existing solutio...
Tao Xie 0004