Jmol: Difference between revisions
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Jmol<ref>Jmol was initiated before 2000 by [http://openscience.org 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, [http://www.stolaf.edu/people/hansonr/ Robert M. Hanson] became lead developer, and has vastly enhanced Jmol's capabilities. For more, see [http://jmol.sourceforge.net/history/ History of Jmol Development].</ref><ref>Biomolecules in the computer: Jmol to the rescue. Angel Herráez,[http://www3.interscience.wiley.com/journal/113449000/abstract ''Biochem. Mol. Biol. Ed.'' '''34''':255-61, 2006].</ref><ref name="jmolparadigmshift" /><ref>[http://wiki.jmol.org:81/index.php/Literature Jmol Literature] at the Jmol.Org wiki.</ref> is a free, open-source [[Molecular modeling and visualization software|molecular visualization]] software package. It is the primary visualization software used in Proteopedia. Jmol is a [http://en.wikipedia.org/wiki/Cross-platform cross-platform] program written in [[Java]], but able to run in an HTML5/Javascript-mode called "'''JSmol'''"<ref>Hanson, RH, Prilusky, J, Renjian, Z, Nakane, T & Sussman, JL. JSmol and the Next-Generation Web-Based Representation of 3D Molecular Structure as Applied to Proteopedia [http://onlinelibrary.wiley.com/doi/10.1002/ijch.201300024 ''Israel Journal of Chemistry'' '''33''':207-16, 2013]</ref> that does not require [[Java]]. Jmol is also available as a stand-alone [[Jmol/Application|application]]. See [[#Jmol Has Four Forms| | Jmol<ref>Jmol was initiated before 2000 by [http://openscience.org 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, [http://www.stolaf.edu/people/hansonr/ Robert M. Hanson] became lead developer, and has vastly enhanced Jmol's capabilities. For more, see [http://jmol.sourceforge.net/history/ History of Jmol Development].</ref><ref>Biomolecules in the computer: Jmol to the rescue. Angel Herráez,[http://www3.interscience.wiley.com/journal/113449000/abstract ''Biochem. Mol. Biol. Ed.'' '''34''':255-61, 2006].</ref><ref name="jmolparadigmshift" /><ref>[http://wiki.jmol.org:81/index.php/Literature Jmol Literature] at the Jmol.Org wiki.</ref> is a free, open-source [[Molecular modeling and visualization software|molecular visualization]] software package. It is the primary visualization software used in Proteopedia. Jmol is a [http://en.wikipedia.org/wiki/Cross-platform cross-platform] program written in [[Java]], but able to run in an HTML5/Javascript-mode called "'''JSmol'''"<ref>Hanson, RH, Prilusky, J, Renjian, Z, Nakane, T & Sussman, JL. JSmol and the Next-Generation Web-Based Representation of 3D Molecular Structure as Applied to Proteopedia [http://onlinelibrary.wiley.com/doi/10.1002/ijch.201300024 ''Israel Journal of Chemistry'' '''33''':207-16, 2013]</ref> that does not require [[Java]]. Jmol is also available as a stand-alone [[Jmol/Application|application]]. See [[#Jmol Has Four Forms|2 forms of Jmol]] and [[How JSmol Works]]. An overview of other Jmol resources is at [[Jmol/Index]]. | ||
'''JSmol''' has proven quite satisfactory for interactive displays of most macromolecules in Proteopedia, and is the default. | '''JSmol''' has proven quite satisfactory for interactive displays of most macromolecules in Proteopedia, and is the default. | ||
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For more information and downloads: [[#See Also|See Also]]. | For more information and downloads: [[#See Also|See Also]]. | ||
==Jmol Has | ==Jmol Has Two Forms== | ||
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Older legacy websites that have not been updated. These will no longer operate in popular web browsers, which by mid-2017 [[Installing and enabling Java|no longer support Java]]. | Older legacy websites that have not been updated. These will no longer operate in popular web browsers, which by mid-2017 [[Installing and enabling Java|no longer support Java]]. | ||
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Both forms of Jmol can be downloaded in a single package from [http://jmol.org Jmol.Org]. | |||
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