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» Assembling genomes on large-scale parallel computers
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FPL
2010
Springer
188views Hardware» more  FPL 2010»
13 years 3 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 ...
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,...
CCGRID
2004
IEEE
13 years 9 months ago
Learning Grid technologies in a project-based computer architecture course
This paper describes the integration of the grid topic within a Computer Architecture engineering course. Students are engaged in a project of design and evaluation of computing s...
Guillermo Vega-Gorgojo, Yannis A. Dimitriadis, Edu...
CCGRID
2006
IEEE
13 years 11 months ago
Analysis of Jobs in a Multi-Organizational Grid Test-bed
The inevitable move from a single large scale server to a distributed Grid environment is beginning to be realized across international Grid test-bed like Pacific Rim Applications...
Bu-Sung Lee, Ming Tang, Junwei Zhang, Yew-Soon Ong...
PLDI
2012
ACM
11 years 8 months ago
Effective parallelization of loops in the presence of I/O operations
Software-based thread-level parallelization has been widely studied for exploiting data parallelism in purely computational loops to improve program performance on multiprocessors...
Min Feng, Rajiv Gupta, Iulian Neamtiu