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VMD: Difference between revisions
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"VMD is a molecular visualization program for displaying, animating, and analyzing large biomolecular systems using 3-D graphics and built-in scripting." | "VMD is a molecular visualization program for displaying, animating, and analyzing large biomolecular systems using 3-D graphics and built-in scripting." | ||
The VMD web site is [https://www.ks.uiuc.edu/Research/vmd/ here]. | The VMD web site is [https://www.ks.uiuc.edu/Research/vmd/ here]. | ||
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This should open VMD graphical windows. | This should open VMD graphical windows. | ||
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See [[Using modules]] for more on the <code>module</code> command, including how to find and use other pre-installed versions. | See [[Using modules]] for more on the <code>module</code> command, including how to find and use other pre-installed versions. | ||
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== Installing plugins == | == Installing plugins == <!--T:29--> | ||
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VMD has many plugins available. You can install them in your own space. | VMD has many plugins available. You can install them in your own space. | ||
The example that follows illustrates how to install the [https://github.com/HuiLiuCode/CaFE_Plugin CaFE plugin], | The example that follows illustrates how to install the [https://github.com/HuiLiuCode/CaFE_Plugin CaFE plugin], | ||
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Edit the <code>.vmdrc</code> file with your favorite editor (<code>nano, vim, emacs</code> etc.) and add this line: | Edit the <code>.vmdrc</code> file with your favorite editor (<code>nano, vim, emacs</code> etc.) and add this line: | ||
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After this, load the <code>vmd</code> module and any other modules which are required, such as <code>namd</code> and the CaFE plugin should be available. | After this, load the <code>vmd</code> module and any other modules which are required, such as <code>namd</code> and the CaFE plugin should be available. | ||
== Links == | == Links == <!--T:33--> | ||
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* WestGrid webinars (in English) | * WestGrid webinars (in English) | ||
** [https://www.youtube.com/watch?v=_skmrS6X4Ys Molecular visualization with VMD] | ** [https://www.youtube.com/watch?v=_skmrS6X4Ys Molecular visualization with VMD] | ||