Difference between revisions of "NAMD"

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[http://www.ks.uiuc.edu/Research/namd/ NAMD] is a parallel molecular dynamics code designed for high-performance simulation of large biomolecular systems. Based on Charm++ parallel objects, NAMD scales to hundreds of processors on high-end parallel platforms and tens of processors on commodity clusters using gigabit ethernet. NAMD uses the popular molecular graphics program [http://www.ks.uiuc.edu/Research/vmd/ VMD] for simulation setup and trajectory analysis, but is also file-compatible with [http://amber.scripps.edu/ AMBER], [http://www.charmm.org/ CHARMM], and [http://atb.csb.yale.edu/xplor/ X-PLOR]. NAMD is distributed free of charge with source code. You can build NAMD yourself or download binaries for a wide variety of platforms. Our tutorials show you how to use NAMD and VMD for biomolecular modeling.
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'''NAMD''' <ref>[http://dx.doi.org/10.1002/jcc.20289 James C. Phillips, Rosemary Braun, Wei Wang, James Gumbart, Emad Tajkhorshid, Elizabeth Villa, Christophe Chipot, Robert D. Skeel, Laxmikant Kalé, Klaus Schulten "Scalable molecular dynamics with NAMD", Journal of Computational Chemistry '''26''' pp. 1781-1802 (2005)]</ref> is a parallel [[molecular dynamics]] code designed for high-performance simulation of large [[Biological systems |biomolecular systems]]. Based on Charm++ parallel objects, NAMD scales to hundreds of processors on high-end parallel platforms and tens of processors on commodity clusters using gigabit ethernet. NAMD uses the popular molecular graphics program [[VMD]] for simulation setup and trajectory analysis, but is also file-compatible with [[AMBER]], [[CHARMM]], and [[X-PLOR]]. NAMD is distributed free of charge with source code. You can build NAMD yourself or download binaries for a wide variety of platforms. Our tutorials show you how to use NAMD and VMD for biomolecular modeling.
 
==References==
 
==References==
#[http://dx.doi.org/10.1002/jcc.20289 James C. Phillips, Rosemary Braun, Wei Wang, James Gumbart, Emad Tajkhorshid, Elizabeth Villa, Christophe Chipot, Robert D. Skeel, Laxmikant Kalé, Klaus Schulten "Scalable molecular dynamics with NAMD", Journal of Computational Chemistry '''26''' pp. 1781-1802 (2005)]
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<references/>
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==External links==
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*[http://www.ks.uiuc.edu/Research/namd/ NAMD Home page]
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*[http://www.nvidia.com/object/namd_on_tesla.html NAMD on Tesla GPUs]
 
[[Category: Materials modelling and computer simulation codes]]
 
[[Category: Materials modelling and computer simulation codes]]

Latest revision as of 15:40, 10 May 2010

NAMD [1] is a parallel molecular dynamics code designed for high-performance simulation of large biomolecular systems. Based on Charm++ parallel objects, NAMD scales to hundreds of processors on high-end parallel platforms and tens of processors on commodity clusters using gigabit ethernet. NAMD uses the popular molecular graphics program VMD for simulation setup and trajectory analysis, but is also file-compatible with AMBER, CHARMM, and X-PLOR. NAMD is distributed free of charge with source code. You can build NAMD yourself or download binaries for a wide variety of platforms. Our tutorials show you how to use NAMD and VMD for biomolecular modeling.

References[edit]

External links[edit]