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IJHPCA
2010
84views more  IJHPCA 2010»
13 years 7 months ago
Operation Stacking for Ensemble Computations With Variable Convergence
Sparse matrix operations achieve only small fractions of peak CPU speeds because of the use of specialized, indexbased matrix representations, which degrade cache utilization by i...
Mehmet Belgin, Godmar Back, Calvin J. Ribbens
ICDM
2010
IEEE
230views Data Mining» more  ICDM 2010»
13 years 6 months ago
Clustering Large Attributed Graphs: An Efficient Incremental Approach
In recent years, many networks have become available for analysis, including social networks, sensor networks, biological networks, etc. Graph clustering has shown its effectivenes...
Yang Zhou, Hong Cheng, Jeffrey Xu Yu
ALGORITHMICA
2011
13 years 3 months ago
All-Pairs Bottleneck Paths in Vertex Weighted Graphs
Let G = (V, E, w) be a directed graph, where w : V → R is an arbitrary weight function defined on its vertices. The bottleneck weight, or the capacity, of a path is the smalles...
Asaf Shapira, Raphael Yuster, Uri Zwick
BMCBI
2011
13 years 10 days ago
Faster Smith-Waterman database searches with inter-sequence SIMD parallelisation
Background: The Smith-Waterman algorithm for local sequence alignment is more sensitive than heuristic methods for database searching, but also more time-consuming. The fastest ap...
Torbjørn Rognes
BMCBI
2005
100views more  BMCBI 2005»
13 years 8 months ago
Scoredist: A simple and robust protein sequence distance estimator
Background: Distance-based methods are popular for reconstructing evolutionary trees thanks to their speed and generality. A number of methods exist for estimating distances from ...
Erik L. L. Sonnhammer, Volker Hollich