Molecular Dynamics, Monte Carlo Simulations, and Langevin Dynamics: A Computational Review
Published 2015 View Full Article
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Title
Molecular Dynamics, Monte Carlo Simulations, and Langevin Dynamics: A Computational Review
Authors
Keywords
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Journal
Biomed Research International
Volume 2015, Issue -, Pages 1-18
Publisher
Hindawi Limited
Online
2015-02-17
DOI
10.1155/2015/183918
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- (2009) Yeng-Tseng Wang et al. BIOPHYSICAL CHEMISTRY
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- (2009) B. R. Brooks et al. JOURNAL OF COMPUTATIONAL CHEMISTRY
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