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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 the Puhti web interface remote desktop. Please don't run VMD on the login nodes.


For improved performance, you can now also run VMD with GPU acceleration in the Puhti web interface. In this case, select Accelerated visualization instead of the plain Desktop app.


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 update: May 9, 2023