Difference between revisions of "TOPTOC"

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== PyMolWiki Top-Level Table Of Contents ==
 
== PyMolWiki Top-Level Table Of Contents ==
−
# [[:Category:News|News]]
+
# '''[[:Category:News|News]]'''
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# [[:Category:FAQ|Frequently Asked Questions]]
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# '''[[:Category:FAQ|Frequently Asked Questions]]'''
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# Brag -- show off your best images or movies.
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# [[Gallery]] -- PyMOL Gallery and HOWTO
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## News Discussion
+
# '''[[:Category:Technical Issues|Technical Issues]]'''
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## PyMol Beta
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## '''[[:Category:Installation|Installation]]'''
−
# [[:Category:Technical Issues|Technical Issues]]
 
−
## [[:Category:Installation|Installation]]
 
 
### [[Linux_Install|Linux]]
 
### [[Linux_Install|Linux]]
 
### [[MAC_Install|MAC]]
 
### [[MAC_Install|MAC]]
 
### [[Windows_Install|Windows]]
 
### [[Windows_Install|Windows]]
−
# [[Launching PyMOL|Launching PyMOL]]
+
# '''[[:Category:Launching|Launching]]'''
 +
## [[Launching PyMOL|Launching PyMOL]]
 
## [[Command_Line_Options|Command Line Options]]
 
## [[Command_Line_Options|Command Line Options]]
 
## [[Launching_From_a_Script|Launching From a Script]]
 
## [[Launching_From_a_Script|Launching From a Script]]
−
# [[:Category:Using Pymol|Using PyMol]]
+
# '''[[:Category:Using Pymol|Using PyMol]]'''
 
## [[Mouse_Controls|Mouse Controls]]
 
## [[Mouse_Controls|Mouse Controls]]
−
## [[:Category:Objects and Selections|Objects and Selections]]
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## '''[[:Category:Objects and Selections|Objects and Selections]]'''
−
### [[:Category:Working with Objects|Working with Objects]]
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### '''[[:Category:Working with Objects|Working with Objects]]'''
−
### [[:Category:Working with Selections|Working with Selections]]
+
### '''[[:Category:Working with Selections|Working with Selections]]'''
−
### [[:Category:Selector_Quick_Reference|Selector Quick Reference]]
+
### '''[[:Category:Selector_Quick_Reference|Selector Quick Reference]]'''
 
#### [[Single-word Selectors|Single-word Selectors]]
 
#### [[Single-word Selectors|Single-word Selectors]]
 
#### [[Property Selectors|Property Selectors]]
 
#### [[Property Selectors|Property Selectors]]
 
#### [[Selection Algebra|Selection Algebra]]
 
#### [[Selection Algebra|Selection Algebra]]
 
#### [[Selection Macros|Selection Macros]]
 
#### [[Selection Macros|Selection Macros]]
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### [[:Category:Representations|Representations]]
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### '''[[:Category:Representations|Representations]]'''
 
#### [[Lines|Lines]]
 
#### [[Lines|Lines]]
 
#### [[Sticks|Sticks]]
 
#### [[Sticks|Sticks]]
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#### [[Spheres|Spheres]]
 
#### [[Spheres|Spheres]]
 
#### [[Dots|Dots]]
 
#### [[Dots|Dots]]
 +
## '''[[:Category:Coloring|Coloring]]'''
 
### [[Color|Color]]
 
### [[Color|Color]]
 +
## '''[[:Category:Biochemical_Properties|Biochemical Properties]]'''
 
### [[Displaying Biochemical Properties|Displaying biochemical properties]]
 
### [[Displaying Biochemical Properties|Displaying biochemical properties]]
−
## [[:Category:Stereo 3D Display|Stereo 3D Display]] -- wrong place
+
## '''[[:Category:Stereo 3D Display|Stereo 3D Display]]''' -- wrong place
 
### [[Linux XFree86 Configuration]] -- wrong place
 
### [[Linux XFree86 Configuration]] -- wrong place
 
## Scenes
 
## Scenes
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## [[Settings]] Reference
 
## [[Settings]] Reference
 
## [http://www.pymolwiki.org/index.php/Special:Search?search=movie&go=Go Movies and Animations Topics]
 
## [http://www.pymolwiki.org/index.php/Special:Search?search=movie&go=Go Movies and Animations Topics]
−
## [[:Category:Structure_Alignment|Structure Alignment]]
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## ''[[:Category:Structure_Alignment|Structure Alignment]]'''
 
## Structure Alignment Editor
 
## Structure Alignment Editor
−
# [[:Category:Commands|PyMol Commands]]
+
# '''[[:Category:Commands|PyMol Commands]]'''
−
# [[:Category:Advanced Issues|Advanced Issues]]
+
# '''[[:Category:Advanced Issues|Advanced Issues]]'''
 
## [[Modeling_and_Editing_Structures|Modeling and editing structures]]
 
## [[Modeling_and_Editing_Structures|Modeling and editing structures]]
 
### [[Editing atoms|Editing Atoms]]
 
### [[Editing atoms|Editing Atoms]]
 
### [[Molecular Sculpting|Molecular sculpting]]
 
### [[Molecular Sculpting|Molecular sculpting]]
 
### [[Homology Modeling|Homology modeling]]
 
### [[Homology Modeling|Homology modeling]]
−
## [[:Category:Image Manipulation|Image Manipulation]]
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## '''[[:Category:Image Manipulation|Image Manipulation]]'''
 
### [[Label|Labels]]
 
### [[Label|Labels]]
 
### Photoshop/GIMP
 
### Photoshop/GIMP
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# [[Scripting|Scripting]]
 
# [[Scripting|Scripting]]
 
## [[Example Scripts|Example Scripts]]
 
## [[Example Scripts|Example Scripts]]
−
## [[:Category:Script Library|Script Library]]
+
## '''[[:Category:Script Library|Script Library]]'''
−
# [[:Category:Plugins|Plugins]]
+
# '''[[:Category:Plugins|Plugins]]'''
−
## [[:Category:Electrostatics|Electrostatics and energy minimization.]]
+
## '''[[:Category:Electrostatics|Electrostatics and energy minimization.]]'''
 
### [[APBS|APBS Plugin]]
 
### [[APBS|APBS Plugin]]
−
## rtools
+
### [[Protein_contact_potential]]
 +
## [http://www.rubor.de/bioinf/pymol_extensions.html rtools]
 
## [[Plugins_Tutorial|Tutorial on writing plugins]]
 
## [[Plugins_Tutorial|Tutorial on writing plugins]]
−
## [[:Category:Plugins Others| Others]]
+
## '''[[:Category:Plugins Others| Others]]'''
 
# High-Level Applications
 
# High-Level Applications
 
## Crystallography Applications
 
## Crystallography Applications
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## NMR Applications
 
## NMR Applications
 
### Working with Structure Families
 
### Working with Structure Families
−
### Superimposition and RMSD
+
## '''[[:Category:Structure_Alignment|Superimposition and RMSD]]'''
 
### NMR Restraints and Analysis
 
### NMR Restraints and Analysis
−
# [[:Category:Third Party Software|Third Party Software]]
+
# '''[[:Category:Third Party Software|Third Party Software]]'''
 
## [[PovRay|PovRay]]
 
## [[PovRay|PovRay]]
 
## [[Making_Movies|Making Movies]]
 
## [[Making_Movies|Making Movies]]
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## [[SURFNET]]
 
## [[SURFNET]]
 
# [[Python_Integration|Python Integration]]
 
# [[Python_Integration|Python Integration]]
−
# [[:Category:PyMol_Integration|PyMol_Integration]] -- adding pymol to other projects (eg OpenGL Object Renderer)
+
# '''[[:Category:PyMol_Integration|PyMol_Integration]]''' -- adding pymol to other projects (eg OpenGL Object Renderer)
 
## [[Nuccyl|Nuccyl]] -- Nuccyl is a great PyMol extension
 
## [[Nuccyl|Nuccyl]] -- Nuccyl is a great PyMol extension
 
## [[CASTp|CASTp]] -- Binding and Active site prediction
 
## [[CASTp|CASTp]] -- Binding and Active site prediction
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## [[ProMOL]]
 
## [[ProMOL]]
 
## [[S2S]]
 
## [[S2S]]
−
## [[:Category:PyMol_Integration Arbitrary_Graphics_Objects|Arbitrary_Graphics_Objects]]
+
## '''[[:Category:PyMol_Integration Arbitrary_Graphics_Objects|Arbitrary_Graphics_Objects]]'''
−
# [[:Category:Uncategorized|Uncategorized]] For new pages, misplaced pages, etc.
+
# '''[[:Category:Uncategorized|Uncategorized]]''' For new pages, misplaced pages, etc.
−
----
 
−
[[User:Tree|Tree]] 02:09, 16 Feb 2005 (CST)
 
−
----
 

Revision as of 15:41, 12 September 2008

Section Layout

Please see Discussion for more thoughts on the site organization.

PyMolWiki Top-Level Table Of Contents

  1. News
  2. Frequently Asked Questions
  3. Gallery -- PyMOL Gallery and HOWTO
  4. Technical Issues
    1. Installation
      1. Linux
      2. MAC
      3. Windows
  5. Launching
    1. Launching PyMOL
    2. Command Line Options
    3. Launching From a Script
  6. Using PyMol
    1. Mouse Controls
    2. Objects and Selections
      1. Working with Objects
      2. Working with Selections
      3. Selector Quick Reference
        1. Single-word Selectors
        2. Property Selectors
        3. Selection Algebra
        4. Selection Macros
      4. Representations
        1. Lines
        2. Sticks
        3. Ball and Sticks
        4. Cartoon
        5. Surface
        6. Mesh
        7. Spheres
        8. Dots
    3. Coloring
      1. Color
    4. Biochemical Properties
      1. Displaying biochemical properties
    5. Stereo 3D Display -- wrong place
      1. Linux XFree86 Configuration -- wrong place
    6. Scenes
    7. Mouse Settings
    8. Wizards
    9. Ray_Tracing
    10. Settings Reference
    11. Movies and Animations Topics
    12. Structure Alignment'
    13. Structure Alignment Editor
  7. PyMol Commands
  8. Advanced Issues
    1. Modeling and editing structures
      1. Editing Atoms
      2. Molecular sculpting
      3. Homology modeling
    2. Image Manipulation
      1. Labels
      2. Photoshop/GIMP
      3. Stereo Figures
      4. Publication-quality images
  9. Scripting
    1. Example Scripts
    2. Script Library
  10. Plugins
    1. Electrostatics and energy minimization.
      1. APBS Plugin
      2. Protein_contact_potential
    2. rtools
    3. Tutorial on writing plugins
    4. Others
  11. High-Level Applications
    1. Crystallography Applications
      1. Symmetry|Symmetry
      2. Electron Density
    2. NMR Applications
      1. Working with Structure Families
    3. Superimposition and RMSD
      1. NMR Restraints and Analysis
  12. Third Party Software
    1. PovRay
    2. Making Movies
    3. Codecs
    4. Surfaces and Voids
    5. O
    6. SURFNET
  13. Python Integration
  14. PyMol_Integration -- adding pymol to other projects (eg OpenGL Object Renderer)
    1. Nuccyl -- Nuccyl is a great PyMol extension
    2. CASTp -- Binding and Active site prediction
    3. CCTBX -- Computational Crystallography Toolbox
    4. ProMOL
    5. S2S
    6. Arbitrary_Graphics_Objects
  15. Uncategorized For new pages, misplaced pages, etc.
Retrieved from "http://pymolwiki.org/index.php?title=TOPTOC&oldid=5400"