Category:Script Library

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The PyMOLWiki script library houses many useful scripts. Here you will find premade scripts that will extend the power of PyMOL.

The scripts are now categorized based on their function. Someone may have added a script but not listed it on this page, therefore please see the autogenerated list of scripts at the bottom of this page.

Please post any script requests to this page's discussion page. Who knows, someone might have already written it or would be willing to write it.

Depositing Scripts

Please create a new page for your script. Once you've done that, please add it to the Script_Library Category and any subcategories appropriate for the script. For example, if you have a script that performs some geometrical action upon various objects or selections you can then add the subcategories of ObjectsAndSelections_SL and also MathGeometry_SL. The convention (which might change is CategoryName_SL (where indicates a subcategory of the ScriptLibrary).

Categorized Descriptions

User Interface

Objects and Selections

System (OS/Filesystem/Web/etc)

Structural Biology

Third Party

Biochemical Scripts

Math/Geometry/CGO

  • Perp Maker -- Creates a perpendicular plane through the center of your protein with respect to the camera's current position. (If you translate the protein towards the camera a bit, you get a nice surface, sometimes.) A stupid little script I wrote in response to a request a few months ago (and it doesn't even conform to the request!) Load a protein, run the script (read the documentation in the script). (Jason Vertrees/Tree)
  • Axes -- Creates a 3D-CGO object that shows the three coordinate axes.
  • Symmetry Axis -- Draw a 3D-CGO line given a point and a direction.
  • CGO Text -- Creates a 3D-CGO text object.
  • Slerpy -- Pymol command extensions for key frame animation movie making.
  • Plane Wizard -- Wizard to draw planes between three picked points.
  • Bounding Box -- Create a bounding box around a selection (Python script; requires numarray and Scientific; gilleain)
  • Ellipsoid -- Create callback object (opengl) ellipsoids. (Python script; gilleain)
  • TransformSelectionByCameraView -- Transforms the selection by the camera view.
  • modevectors -- A wonderful script that allows you to draw highly customizable vectors between two states (NMA, TMD, etc)
  • Center Of Mass -- Given a selection of atoms (of equal weight) - Calculates the center of mass and represents it with a CGO sphere

Subcategories

This category has the following 7 subcategories, out of 7 total.

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Pages in category "Script Library"

The following 197 pages are in this category, out of 197 total.

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