NAMD - Revision history

Carl McBride: Slight tidy.

2010-05-10T14:40:14Z

Slight tidy.

← Older revision		Revision as of 16:40, 10 May 2010
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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.		'''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)~~]		<references/>
			==External links==
			*[http://www.ks.uiuc.edu/Research/namd/ NAMD Home page]
			*[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]]

Nice and Tidy at 17:59, 30 October 2007

2007-10-30T17:59:56Z

← Older revision		Revision as of 19:59, 30 October 2007
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	==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)]		#[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)]
	[[Category: Materials ~~modeling~~ and ~~Computer~~ simulation codes]]		[[Category: Materials modelling and computer simulation codes]]

Carl McBride at 13:35, 26 April 2007

2007-04-26T13:35:48Z

← Older revision		Revision as of 15:35, 26 April 2007
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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.		[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.
			==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)]
	[[Category: Materials modeling and Computer simulation codes]]		[[Category: Materials modeling and Computer simulation codes]]

Carl McBride at 15:56, 26 February 2007

2007-02-26T15:56:58Z

← Older revision		Revision as of 17:56, 26 February 2007
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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.		[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.
			[[Category: Materials modeling and Computer simulation codes]]

Elomba at 09:03, 22 February 2007

2007-02-22T09:03:18Z

← Older revision		Revision as of 11:03, 22 February 2007
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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 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.		[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.

Elomba at 09:01, 22 February 2007

2007-02-22T09:01:18Z

← Older revision		Revision as of 11:01, 22 February 2007
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	~~==External links==~~		[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 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.
	[http://www.ks.uiuc.edu/Research/namd/]

Carl McBride: New page: ==External links== [http://www.ks.uiuc.edu/Research/namd/]

2007-02-19T10:36:25Z

New page: ==External links== [http://www.ks.uiuc.edu/Research/namd/]

New page

==External links==
[http://www.ks.uiuc.edu/Research/namd/]