Visualization Software
VMD Tutorials
Download VMD and Manual
To download VMD and the documentation, please see the VMD
website. Please note that VMD no longer supports OpenGL
and therefore does not work on MacOSX from
Catalina and newer (10.15 and on).
Using VMD with AMBER
This
tutorial acts as a brief introduction to using
VMD for visualising
AMBER
inpcrd, restrt and trajectory files. While only scratching the
surface of
what VMD can do it covers setting up a .vmdrc file
to set the default layout
of VMD, loading static structures and performing RMSD
fits between similar
structures. It then goes on to cover loading and
visualising AMBER
trajectories, both from gas phase/implicit solvent
simulations and from
periodic boundary simulations and shows how to save
individual frames from a
trajectory as well as create an MPEG video of the trajectory. By Ross
Walker.
VMD Movie Making
This is a tutorial on how to make an mp4 movie in VMD from your
Amber trajectory. By Rodrigo Galindo-Murillo.
Official VMD Tutorials
VMD makes their own tutorials, which are also helpful.
Chimera Tutorials
Download Chimera-X and Manual
This is the link to download Chimera-X a visualization program from UCSF.
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