Jmol
Jmol[1][2][3] is a free, open-source molecular visualization software package. Its applet is the primary visualization software used in Proteopedia. Jmol is a cross-platform program written in java, and is available either as a stand-alone application, or as a web browser applet.
The Jmol applet is also used in Molecular Workbench.
For more information and downloads, please see Jmol.Org.
Command Scripting LanguageCommand Scripting Language
Jmol has an extensive and powerful command language that specifies molecular scenes. A molecular scene consists of the rendering or display for each part of the molecular model (e.g. ribbon cartoon, ball and stick, etc.), optionally hiding some parts of the model, the color or color scheme for each moiety, optional labels (attached to an atom) or signs (text in a fixed location), and the orientation and zoom (magnification) of the molecule.
See AlsoSee Also
ReferencesReferences
- ↑ Jmol was initiated before 2000 by Dan Gezelter, and many programmers contributed to it including Bradley A. Smith, Egon Willighagen, and Cristoph Steinbeck. In 2002, Miguel Howard volunteered as the primary developer. He made many major enhancements including drastically improved performance, support for macromolecules, and implementation of the RasMol / Chime script command language. Howard's work culminated in the release of an open-source replacement for Chime in 2006. Subsequently, Robert M. Hanson became lead developer, and has vastly enhanced Jmol's capabilities. For more, see History of Jmol Development.
- ↑ Biomolecules in the computer: Jmol to the rescue. Angel Herráez,Biochem. Mol. Biol. Ed. 34:255-61, 2006.
- ↑ Jmol Literature at the Jmol.Org wiki.