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.
User Interface
- ObjectByArrows
- PowerMate Dial OS X
- Mouse modes
- Key Wait
- Grepset
- Apropos
- Stereo ray
- PDB Web Services Script
- Stereo Figures
- Movit
- Spectrumbar
- Save2traj
- VisLoad
- Aa codes
- Set toggle
- Movie fade
- Save settings
- Dynamic mesh
- ObjectFocus
- Make Figures
- Inertia tensor
- ImmersiveViz
- RUCAP UM-5
- Format bonds
- Get colors
- Movie color fade
- Quickdisplays
- Distancetoatom
- Pytms
- Frame slider
Objects and Selections
- ConnectedCloud
- Zero residues
- List Selection
- List Colors
- List Secondary Structures
- Selection Exists
- Color Objects
- Get Coordinates I
- Get Coordinates II
- Grepsel
- Findseq
- ToGroup
- Save sep
- FindSurfaceResidues
- AlphaToAll
- Expand To Surface
- Removealt
- GetNamesInSel
- FindObjectsNearby
- CollapseSel
- SelInside
- Split selection
- Split Object Along Axis
- Split Movement
- SaveGroup
- SelectClipped
- Rotkit
- Get raw distances
- Find buried waters
- Count molecules in selection
- DistancesRH
- Cluster Count
- ListSelection2
- Pairwise distances
- ShowLigandWaters
- Flatten obj
- Annotate v
- Color cbcobj
- FindSurfaceCharge
System (OS/Filesystem/Web/etc)
- FilterByMol
- LoadDir
- Process All Files In Directory
- PythonTerminal
- Pdbsurvey
- Read PDB-String
- Pml2py
- Tiff2ccp4
- Monitor file continuously
- XML-RPC server
- FetchLocal
- Find symbol
Structural Biology
- FilterByMol
- LoadDir
- Process All Files In Directory
- PythonTerminal
- Pdbsurvey
- Read PDB-String
- Pml2py
- Tiff2ccp4
- Monitor file continuously
- XML-RPC server
- FetchLocal
- Find symbol
Third Party
- Rasmolify
- Wfmesh
- Transform odb
- PovRay
- Ccp4 ncont
- Ccp4 contact
- Ccp4 pisa
- Tiff2ccp4
- Pymol2glmol
- Save Mopac
- PoseView
- RUCAP UM-5
Biochemical Scripts
- Show aromatics
- Show hydrophobics
- Show charged
- Show hydrophilic
- Pucker
- Resicolor
- CreateAtom
- Color h
- FindSurfaceResidues
- Average b
- AAindex
- Polarpairs
- Propka
- Forster distance calculator
- Cyspka
- DistancesRH
- ListSelection2
- Pairwise distances
- ShowLigandWaters
- Quickdisplays
- Distancetoatom
- Load new B-factors
- Pytms
- Show contacts
- Color cbcobj
- FindSurfaceCharge
Math/Geometry/CGO
- Perp maker
- Symmetry Axis
- CGO Text
- Plane Wizard
- Bounding Box
- Ellipsoid
- TransformSelectionByCameraView
- Modevectors
- Center of mass
- DrawBoundingBox
- Slerpy
- CgoCircle
- SuperSym
- Supercell
- BiologicalUnit
- BbPlane
- BiologicalUnit/Quat
- Radius of gyration
- Cart to frac
- Mark center
- Dump2CGO
- Axes
- Contact Surface
- Cgo arrow
- Cubes
- Distancetoatom
- Cgo grid
- RotationAxis
- Draw Protein Dimensions
Subcategories
This category has the following 7 subcategories, out of 7 total.
Pages in category "Script Library"
The following 197 pages are in this category, out of 197 total.
C
- CalcArea
- Cart to frac
- Ccp4 contact
- Ccp4 ncont
- Ccp4 pisa
- Cealign plugin
- Center of mass
- Centroid
- Cgo arrow
- Cgo grid
- CGO Text
- CgoCircle
- Check Key
- Cluster Count
- CMPyMOL
- CollapseSel
- Color by conservation
- Color By Mutations
- Color cbcobj
- Color h
- Color Objects
- Colorblindfriendly
- Colorbydisplacement
- ColorByRMSD
- ConnectedCloud
- Consistent View/ Map Inspect
- Contact Surface
- Count molecules in selection
- CreateAtom
- CreateSecondaryStructure
- Cubes
- Cyspka
D
F
J
L
M
P
R
S
- Save Mopac
- Save pdb with anisou
- Save sep
- Save settings
- Save2traj
- SaveGroup
- Ss
- Select sites
- SelectClipped
- Selection Exists
- SelInside
- Set toggle
- Show aromatics
- Show bumps
- Show charged
- Show contacts
- Show hydrophilic
- Show hydrophobics
- Nmr cnstr
- ShowLigandWaters
- Sidechaincenters
- Slerpy
- Spectrum states
- Spectrumany
- Spectrumbar
- Split chains
- Split Movement
- Split Object Along Axis
- Split object
- Split selection
- Sst
- Stereo ray
- Stereo Figures
- Supercell
- SuperSym
- Symmetry Axis