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BMCBI
2010
189views more  BMCBI 2010»
13 years 8 months ago
Efficient parallel and out of core algorithms for constructing large bi-directed de Bruijn graphs
Background: Assembling genomic sequences from a set of overlapping reads is one of the most fundamental problems in computational biology. Algorithms addressing the assembly probl...
Vamsi Kundeti, Sanguthevar Rajasekaran, Hieu Dinh,...
PARELEC
2002
IEEE
14 years 26 days ago
Techniques for Optimization of Net Algorithms
In this paper, techniques for optimization of net algorithms describing parallel asynchronous computations and derived from cycling and branching behavioral descriptions are prese...
Anatoly Prihozhy, Daniel Mlynek, Michail Solomenni...
JCIT
2010
150views more  JCIT 2010»
13 years 2 months ago
Characteristic Description of Coupled Task Sets Based on Design Structure Matrix and Its Optimal Time and Efforts Solution by Ge
The complicated interactions among tasks lead to iterations in product design and development. To maintain the market share, enterprises should effectively manage their product de...
Ting-gui Chen, Chun-hua Ju
IPPS
2010
IEEE
13 years 5 months ago
Hybrid MPI/Pthreads parallelization of the RAxML phylogenetics code
Abstract--A hybrid MPI/Pthreads parallelization was implemented in the RAxML phylogenetics code. New MPI code was added to the existing Pthreads production code to exploit parallel...
Wayne Pfeiffer, Alexandros Stamatakis
ICS
1994
Tsinghua U.
14 years 1 days ago
Evaluating automatic parallelization for efficient execution on shared-memory multiprocessors
We present a parallel code generation algorithm for complete applications and a new experimental methodology that tests the efficacy of our approach. The algorithm optimizes for d...
Kathryn S. McKinley