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JCPHY
2011
192views more  JCPHY 2011»
12 years 11 months ago
Fast analysis of molecular dynamics trajectories with graphics processing units - Radial distribution function histogramming
The calculation of radial distribution functions (RDFs) from molecular dynamics trajectory data is a common and computationally expensive analysis task. The rate limiting step in ...
Benjamin G. Levine, John E. Stone, Axel Kohlmeyer
IPPS
2007
IEEE
14 years 3 months ago
Performance Analysis of a Family of WHT Algorithms
This paper explores the correlation of instruction counts and cache misses to runtime performance for a large family of divide and conquer algorithms to compute the Walsh–Hadama...
Michael Andrews, Jeremy Johnson
DPD
2002
125views more  DPD 2002»
13 years 8 months ago
Parallel Mining of Outliers in Large Database
Data mining is a new, important and fast growing database application. Outlier (exception) detection is one kind of data mining, which can be applied in a variety of areas like mon...
Edward Hung, David Wai-Lok Cheung
PDPTA
2010
13 years 6 months ago
Data-Parallelism and GPUs for Lattice Gas Fluid Simulations
Lattice gas cellular automata (LGCA) models provide a relatively fast means of simulating fluid flow and can give both quantitative and qualitative insights into flow patterns aro...
Mitchel Johnson, Daniel P. Playne, Kenneth A. Hawi...
BMCBI
2008
103views more  BMCBI 2008»
13 years 8 months ago
TOPS++FATCAT: Fast flexible structural alignment using constraints derived from TOPS+ Strings Model
Background: Protein structure analysis and comparison are major challenges in structural bioinformatics. Despite the existence of many tools and algorithms, very few of them have ...
Mallika Veeramalai, Yuzhen Ye, Adam Godzik