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» A Theoretical Analysis of Scalability of the Parallel Genome...
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IPPS
2002
IEEE
13 years 9 months ago
Parallel Out-of-Core Algorithm for Genome-Scale Enumeration of Metabolic Systemic Pathways
Systemic pathways-oriented approaches to analysis of metabolic networks are effective for small networks but are computationally infeasible for genome scale networks. Current comp...
Nagiza F. Samatova, Al Geist, George Ostrouchov, A...
GECCO
2005
Springer
101views Optimization» more  GECCO 2005»
13 years 10 months ago
A scalable parallel genetic algorithm for x-ray spectroscopic analysis
We use a parallel multi-objective genetic algorithm to drive a search and reconstruction spectroscopic analysis of plasma gradients in inertial confinement fusion (ICF) implosion...
Kai Xu, Sushil J. Louis, Roberto C. Mancini
BMCBI
2010
189views more  BMCBI 2010»
13 years 5 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,...
FPL
2010
Springer
188views Hardware» more  FPL 2010»
13 years 2 months ago
SeqHive: A Reconfigurable Computer Cluster for Genome Re-sequencing
We demonstrate how Field Programmable Gate Arrays (FPGAs) may be used to address the computing challenges associated with assembling genome sequences from recent ultra-high-through...
Kristian Stevens, Henry Chen, Terry Filiba, Peter ...