Molecular modeling and visualization software: Difference between revisions

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ConfirmAccount, Editor, Print3D, Tester, Bureaucrats, journal, Administrators
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Eric Martz (talk | contribs)
ConfirmAccount, Editor, Print3D, Tester, Bureaucrats, journal, Administrators
30,118 edits
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*[[Jmol]], an open-source java-based program available in stand-alone or applet forms. The applet is used in Proteopedia, and in the free educational software [[Molecular Workbench]]. Effective use of Jmol requires learning a command scripting language.
*[[Jmol]], an open-source java-based program available in stand-alone or applet forms. The applet is used in Proteopedia, and in the free educational software [[Molecular Workbench]]. Effective use of Jmol requires learning a command scripting language.
*[[FirstGlance in Jmol]], an open-source user-interface to [[Jmol]] utilized in the ''3D View'' links in papers in the journal [http://www.nature.com/nature Nature] that report new macromolecular structures. Proteopedia's automatically seeded pages (pages titled with a [[PDB code]]) have links for further exploration of the structure in'' FirstGlance in Jmol''. Although ''FirstGlance in Jmol'' by no means exploits all the power in Jmol, it does show the main structural features of a macromolecule '''without learning any command scripting language'''. [[FirstGlance in Jmol|More ...]]
*[[FirstGlance in Jmol]], an open-source user-interface to [[Jmol]] utilized in the ''3D View'' links in papers in the journal [http://www.nature.com/nature Nature] that report new macromolecular structures. Proteopedia's automatically seeded pages (pages titled with a [[PDB code]]) have links for further exploration of the structure in'' FirstGlance in Jmol''. Although ''FirstGlance in Jmol'' by no means exploits all the power in Jmol, it does show the main structural features of a macromolecule '''without learning any command scripting language'''. [[FirstGlance in Jmol|More ...]]
*[[RasMol]], an open-source stand-alone program released in 1993, and still popular.
*[[RasMol]], an open-source stand-alone program released in 1993, and still popular. Effective use of RasMol requires learning a command scripting language.
*[[Protein Explorer]], an extensive and powerful open-source user-interface to [[Chime]]. Although there is nothing else available in 2009 that combines the power and ease of use of Protein Explorer, it is falling into disuse because of difficulties related to installation and operation of the [[Chime]] browser plugin. Because Jmol is now much more powerful and easier to get working, especially on OS X, maintenance of Protein Explorer ceased in 2007. A start has been made at implementing [http://chemapps.stolaf.edu/pe/protexpl/htm/index.htm Protein Explorer with Jmol], but this project is in its infancy. (Volunteers are needed!)
*[[Chime]], a free browser plugin released in 1996, now superceded by [[Jmol]]. Not open-source.
*[[Chime]], a free browser plugin released in 1996, now superceded by [[Jmol]]. Not open-source.
*[[Protein Explorer]], an extensive and powerful open-source user-interface to [[Chime]]. Although there is nothing else available in 2009 that combines the power and ease of use of Protein Explorer, it is falling into disuse because of difficulties related to installation and operation of the [[Chime]] browser plugin. Because Jmol is now much more powerful and easier to get working, especially on OS X, maintenance of Protein Explorer ceased in 2007. A start has been made at implementing [http://chemapps.stolaf.edu/pe/protexpl/htm/index.htm Protein Explorer with Jmol], but this project is in its infancy. (Volunteers are needed!)


==Free molecular modeling software==
==Free molecular modeling software==
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