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BMCBI
2005
158views more  BMCBI 2005»
13 years 5 months ago
Automated generation of heuristics for biological sequence comparison
Background: Exhaustive methods of sequence alignment are accurate but slow, whereas heuristic approaches run quickly, but their complexity makes them more difficult to implement. ...
Guy St. C. Slater, Ewan Birney
PPOPP
2012
ACM
12 years 29 days ago
Better speedups using simpler parallel programming for graph connectivity and biconnectivity
Speedups demonstrated for finding the biconnected components of a graph: 9x to 33x on the Explicit Multi-Threading (XMT) many-core computing platform relative to the best serial ...
James A. Edwards, Uzi Vishkin
SC
2000
ACM
13 years 9 months ago
A Comparison of Three Programming Models for Adaptive Applications on the Origin2000
Adaptive applications have computational workloads and communication patterns which change unpredictably at runtime, requiring dynamic load balancing to achieve scalable performan...
Hongzhang Shan, Jaswinder Pal Singh, Leonid Oliker...
ASPLOS
2008
ACM
13 years 7 months ago
Communication optimizations for global multi-threaded instruction scheduling
The recent shift in the industry towards chip multiprocessor (CMP) designs has brought the need for multi-threaded applications to mainstream computing. As observed in several lim...
Guilherme Ottoni, David I. August
CCECE
2006
IEEE
13 years 11 months ago
Dynamic and Parallel Approaches to Optimal Evolutionary Tree Construction
Phylogenetic trees are commonly reconstructed based on hard optimization problems such as Maximum parsimony (MP) and Maximum likelihood (ML). Conventional MP heuristics for produc...
Anupam Bhattacharjee, Kazi Zakia Sultana, Zalia Sh...