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ICPP
2006
IEEE
15 years 3 months ago
Scalable Time-Parallelization of Molecular Dynamics Simulations in Nano Mechanics
— Molecular Dynamics (MD) is an important atomistic simulation technique, with widespread use in computational chemistry, biology, and materials. An important limitation of MD is...
Yanan Yu, Ashok Srinivasan, Namas Chandra
VIS
2004
IEEE
148views Visualization» more  VIS 2004»
15 years 10 months ago
Detection and Visualization of Anomalous Structures in Molecular Dynamics Simulation Data
In this article we explore techniques to detect and visualize features in data from molecular dynamics (MD) simulations. Although the techniques proposed are general, we focus on ...
John Wilkins, Kaden Hazzard, Raghu Machiraju, Same...
DAGSTUHL
2010
14 years 11 months ago
Saliency Guided Summarization of Molecular Dynamics Simulations
We present a novel method to measure saliency in molecular dynamics simulation data. This saliency measure is based on a multiscale center-surround mechanism, which is fast and ef...
Robert Patro, Cheuk Yiu Ip, Amitabh Varshney
ASAP
2009
IEEE
142views Hardware» more  ASAP 2009»
15 years 6 months ago
Parallel Discrete Event Simulation of Molecular Dynamics Through Event-Based Decomposition
—Molecular dynamics simulation based on discrete event simulation (DMD) is emerging as an alternative to time-step driven molecular dynamics (MD). DMD uses simplified discretize...
Martin C. Herbordt, Md. Ashfaquzzaman Khan, Tony D...
CPHYSICS
2006
95views more  CPHYSICS 2006»
14 years 9 months ago
Multibillion-atom molecular dynamics simulation: Design considerations for vector-parallel processing
Progress in adapting molecular dynamics algorithms for systems with short-range interactions to utilize the features of modern supercomputers is described. Efficient utilization o...
D. C. Rapaport