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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 5 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 7 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 11 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
14 years 1 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 9 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