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VMD (Visual Molecular Dynamics) is a molecular visualization program for displaying, animating, and analyzing large biomolecular systems using 3-D graphics and built-in scripting.


  • Puhti: 1.9.3
  • Mahti: 1.9.3



Initialize with:

module load vmd/1.9.3 

Note, that you need remote graphics to work with VMD. Due to the heavy graphics required by VMD we recommend to use it through NoMachine. Please don't run VMD on the Puhti login nodes, but e.g. via the sinteractive command on a compute node (one core will be available without queueing).


The authors request that all published work which utilizes VMD include the primary VMD citation at a minimum:

    Humphrey, W., Dalke, A. and Schulten, K., "VMD - Visual Molecular Dynamics", 
    J. Molec. Graphics, 1996, vol. 14, pp. 33-38. 

Consult "How to cite VMD", for further details.

More information

Last edited Thu Aug 27 2020