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» Stochastic pairwise alignments
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IPPS
2008
IEEE
14 years 2 months ago
SWAMP: Smith-Waterman using associative massive parallelism
One of the most commonly used tools by computational biologists is some form of sequence alignment. Heuristic alignment algorithms developed for speed and their multiple results s...
Shannon Steinfadt, Johnnie W. Baker
SSDBM
2006
IEEE
163views Database» more  SSDBM 2006»
14 years 1 months ago
ACache: Using Caching to Improve the Performance of Multiple Sequence Alignments
Multiple sequence alignment represents a class of powerful bioinformatics tools with many uses in computational biology ranging from discovery of characteristic motifs and conserv...
Xun Tu, Kajal T. Claypool, Cindy X. Chen
MICCAI
2009
Springer
14 years 8 months ago
Asymmetric Image-Template Registration
A natural requirement in pairwise image registration is that the resulting deformation is independent of the order of the images. This constraint is typically achieved via a symmet...
Mert R. Sabuncu, B. T. Thomas Yeo, Koen Van Leem...
TCBB
2010
114views more  TCBB 2010»
13 years 6 months ago
Cache-Oblivious Dynamic Programming for Bioinformatics
— We present efficient cache-oblivious algorithms for some well-studied string problems in bioinformatics including the longest common subsequence, global pairwise sequence alig...
Rezaul Alam Chowdhury, Hai-son Le, Vijaya Ramachan...
CISS
2008
IEEE
14 years 2 months ago
On wireless network scheduling with intersession network coding
Abstract—Cross-layer optimization including congestion control, routing, and scheduling has shown dramatic throughput improvement over layered designs for wireless networks. In p...
Chih-Chun Wang, Ness B. Shroff