Difference between revisions of "Jmol"
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| − | '''Jmol''' is a [[Java]] molecular viewer for three-dimensional chemical structures. Features include reading a variety of file types and output from quantum chemistry programs, and animation of multi-frame files and computed normal modes from quantum programs. It is free and | + | '''Jmol''' is a [[Java]] molecular viewer for three-dimensional chemical structures. Features include reading a variety of file types and output from quantum chemistry programs, and animation of multi-frame files and computed normal modes from quantum programs. It is free and open source. There a is a standalone application and a development tool kit that can be integrated into other Java applications. The most notable feature is an applet that can be integrated into web pages to display molecules in a variety of ways. For example, molecules can be displayed as "ball and stick" models, "space filling models", etc. This feature of Jmol has largely replaced the plugin [[MDL Chime|Chime]], partly because there is no need to install a plugin, just have Java installed, and partly because Chime is no longer supported by some browsers. It supports a wide range of molecular file formats. |
==See also== | ==See also== | ||
| − | * [[PyMOL]] | + | *[[PyMOL]] |
| − | * [[RasMol]] | + | *[[RasMol]] |
| − | * [[PDBsum]] | + | *[[PDBsum]] |
| + | *[[Chime]] | ||
==External links== | ==External links== | ||
| Line 15: | Line 16: | ||
*[http://webpages.dcu.ie/~pratta/ Dublin City University CHIME and Jmol Pages] | *[http://webpages.dcu.ie/~pratta/ Dublin City University CHIME and Jmol Pages] | ||
*[http://www.ch.ic.ac.uk/local/organic/pericyclic/ A lecture course on pericyclic reactions using Jmol] | *[http://www.ch.ic.ac.uk/local/organic/pericyclic/ A lecture course on pericyclic reactions using Jmol] | ||
| − | *[http://www.ch.ic.ac.uk/local/symmetry/ | + | *[http://www.ch.ic.ac.uk/local/symmetry/ Molecular symmetry illustrated using Jmol] |
| − | *[http://www.ch.ic.ac.uk/rzepa/bpr/ | + | *[http://www.ch.ic.ac.uk/rzepa/bpr/ Berry and other modes of pseudorotation illustrated using Jmol] |
| − | *[http://www.ch.ic.ac.uk/local/organic/mod/ | + | *[http://www.ch.ic.ac.uk/local/organic/mod/ Molecular modelling case studies illustrated using Jmol] |
*[http://www.ebi.ac.uk/thornton-srv/databases/pdbsum/ PDBsum] — by the European Bioinformatics Institute, UK | *[http://www.ebi.ac.uk/thornton-srv/databases/pdbsum/ PDBsum] — by the European Bioinformatics Institute, UK | ||
{{stub}} | {{stub}} | ||
[[Category:Bioinformatics]] | [[Category:Bioinformatics]] | ||
Latest revision as of 01:09, 17 August 2007
Jmol is a Java molecular viewer for three-dimensional chemical structures. Features include reading a variety of file types and output from quantum chemistry programs, and animation of multi-frame files and computed normal modes from quantum programs. It is free and open source. There a is a standalone application and a development tool kit that can be integrated into other Java applications. The most notable feature is an applet that can be integrated into web pages to display molecules in a variety of ways. For example, molecules can be displayed as "ball and stick" models, "space filling models", etc. This feature of Jmol has largely replaced the plugin Chime, partly because there is no need to install a plugin, just have Java installed, and partly because Chime is no longer supported by some browsers. It supports a wide range of molecular file formats.
See also
External links
- Jmol web site
- Jmol Wiki
- Jmol MediaWiki Extension
- Websites using Jmol
- Wikis using Jmol
- Moodles using Jmol
- Dublin City University CHIME and Jmol Pages
- A lecture course on pericyclic reactions using Jmol
- Molecular symmetry illustrated using Jmol
- Berry and other modes of pseudorotation illustrated using Jmol
- Molecular modelling case studies illustrated using Jmol
- PDBsum — by the European Bioinformatics Institute, UK
This article is curently a "stub". This means it is an incomplete article needing further elaboration.
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