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IPPS
2009
IEEE
15 years 9 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
127
Voted
APPT
2009
Springer
15 years 9 months ago
Computational Performance of a Parallelized Three-Dimensional High-Order Spectral Element Toolbox
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...
Christoph Bosshard, Roland Bouffanais, Christian C...
106
Voted
IPPS
2007
IEEE
15 years 9 months ago
Coarse-grain Parallel Execution for 2-dimensional PDE Problems
This paper presents a new approach for the execution of coarse-grain (tiled) parallel SPMD code for applications derived from the explicit discretization of 2-dimensional PDE prob...
Georgios I. Goumas, Nikolaos Drosinos, Vasileios K...
97
Voted
IPPS
2007
IEEE
15 years 9 months ago
ParalleX: A Study of A New Parallel Computation Model
This paper proposes the study of a new computation model that attempts to address the underlying sources of performance degradation (e.g. latency, overhead, and starvation) and th...
Guang R. Gao, Thomas L. Sterling, Rick Stevens, Ma...
124
Voted
IPPS
2006
IEEE
15 years 8 months ago
Babylon v2.0: middleware for distributed, parallel, and mobile Java applications
Babylon v2.0 is a collection of tools and services that provide a 100% Java compatible environment for developing, running and managing parallel, distributed and mobile Java appli...
Willem van Heiningen, Tim Brecht, Steve MacDonald