PyMOL: Difference between revisions
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[http://pymol.org PyMOL] is a stand-alone [[Molecular modeling and visualization software|molecular visualization]] program that is very popular with protein crystallographers because of the high quality of its rendering, its speed and versatility. A large percentage of the figures in journal publications reporting new macromolecular structures are created using PyMOL. PyMOL is the creation of [http://www.delanoscientific.com/ Warren DeLano]. Effective use of PyMOL requires that you become familiar with highly abbreviated menus, and/or a command scripting language. | [http://pymol.org PyMOL] is a stand-alone [[Molecular modeling and visualization software|molecular visualization]] program that is very popular with protein crystallographers because of the high quality of its rendering, its speed and versatility. A large percentage of the figures in journal publications reporting new macromolecular structures are created using PyMOL. PyMOL is the creation of [http://www.delanoscientific.com/ Warren DeLano]. Effective use of PyMOL requires that you become familiar with highly abbreviated menus, and/or a command scripting language. | ||
Molecular scenes prepared in PyMOL can be imported into Protoepedia scenes, using the [[PyMOL2Jmol_Translator]], which allows you to choose a PyMOL session file (.pse file) that you have saved on your computer and have it converted directly into a Jmol scene to be saved and displayed in Proteopedia. | Molecular scenes prepared in PyMOL can be imported into Protoepedia scenes, using the [[PyMOL2Jmol_Translator]] (not yet released), which allows you to choose a PyMOL session file (.pse file) that you have saved on your computer and have it converted directly into a Jmol scene to be saved and displayed in Proteopedia. | ||
PyMOL has an innovative license: it is open source, but not free in all forms: the author's current ready-to-run downloads (binaries) and up-to-date documentation require payment of modest annual subscription fees. However, a current [http://pymol.org/educational.html free version] is available to students and educators for classroom use, old out-of-date binary builds can be [http://delsci.com/rel/099 freely downloaded] by anyone, and some Linux distributions provide [http://packages.debian.org/stable/pymol PyMOL packages] compiled from the open-source code. | PyMOL has an innovative license: it is open source, but not free in all forms: the author's current ready-to-run downloads (binaries) and up-to-date documentation require payment of modest annual subscription fees. However, a current [http://pymol.org/educational.html free version] is available to students and educators for classroom use, old out-of-date binary builds can be [http://delsci.com/rel/099 freely downloaded] by anyone, and some Linux distributions provide [http://packages.debian.org/stable/pymol PyMOL packages] compiled from the open-source code. | ||
Revision as of 19:43, 6 November 2009
PyMOL is a stand-alone molecular visualization program that is very popular with protein crystallographers because of the high quality of its rendering, its speed and versatility. A large percentage of the figures in journal publications reporting new macromolecular structures are created using PyMOL. PyMOL is the creation of Warren DeLano. Effective use of PyMOL requires that you become familiar with highly abbreviated menus, and/or a command scripting language.
Molecular scenes prepared in PyMOL can be imported into Protoepedia scenes, using the PyMOL2Jmol_Translator (not yet released), which allows you to choose a PyMOL session file (.pse file) that you have saved on your computer and have it converted directly into a Jmol scene to be saved and displayed in Proteopedia.
PyMOL has an innovative license: it is open source, but not free in all forms: the author's current ready-to-run downloads (binaries) and up-to-date documentation require payment of modest annual subscription fees. However, a current free version is available to students and educators for classroom use, old out-of-date binary builds can be freely downloaded by anyone, and some Linux distributions provide PyMOL packages compiled from the open-source code.
PyMOL has a strong user community which interacts via the PyMOL-Users mailing list and operates the PyMOL Wiki documentation site. The "Py" in PyMOL refers to the Python language, an integral part of the package. Python enables users to automate PyMOL with simple command scripts and to develop plugins with their own custom user interfaces.
See AlsoSee Also
- PyMOL2Jmol Translator
- PyMOL.Org, the official download and information home of PyMOL.
- Molecular modeling and visualization software
- World Index of Molecular Visualization Software