Rendering

Jmol / JSmol Tutorials

• A list of Jmol / JSmol Tutorials written by users.
• Using the mouse (English · Español · Français · Japanese).
• Scripting quickstart: rendering options · selecting atoms.
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• Displaying shapes, polyhedra, orbitals, dipoles, distances, forces and vibrations.
• Creating movies.
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Rendering in Jmol can be needlessly complicated for a beginner, or one who is used to simple Chime scripting. The Jmol menu isn't much help, because it offers standard schemes under the Style submenu, but doesn't provide them in scripting!

To help with that, here's the way the standard styles (from the Jmol menu) may be rendered in Jmol script; the script elements are shown in quotation marks:

Space-filling:

spacefill 100%;
// or
spacefill on;
// or
spacefill only; // disables all other styles

Ball-and-stick:

wireframe 0.15; spacefill 23%;

Stick model:

wireframe 0.3; spacefill off;

Wireframe:

wireframe 0.01; spacefill 0;
// or
wireframe on; spacefill off;
// or
wireframe only;  // disables all other styles

Cartoon (macromolecules only):

select protein, nucleic;
cartoon only;
color cartoon structure;

A note to Jmol developers: it would be helpful to have a single command within Jmol that would implement the standard Jmol rendering styles! --BergerBluffton 18:33, 2 September 2007 (CEST)

Contributors

Green, BergerBluffton, AngelHerraez, Pimpim