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- 0.99beta11
- 2. Translucent Surfaces
- 2to3
- 3DNA
- 3Dstrut
- 3d pdf
- AAindex
- AKMT Lys pred
- APBS
- APBS Electrostatics Plugin
- Aa codes
- Abort
- About
- Advanced Coloring
- Advanced Scripting
- Alias
- Align
- All states
- AlphaToAll
- Ambient
- AngleBetweenHelices
- Angle between domains
- Annocryst
- Annotate v
- Annotation wizard
- Antialias
- Apbsplugin
- Apropos
- Assembly
- Async builds
- Atom name wildcard
- Attach
- AutoMultiFit
- Auto arg
- Auto show classified
- Auto zoom
- Autodock plugin
- Average b
- Axes
- Axpymol
- Azahar
- B2transparency
- Backface cull
- Backward
- Ball and Stick
- BbPlane
- Bg Color
- Bg gradient
- Bg rgb
- Bg rgb bottom
- Bg rgb top
- Biochemistry student intro
- BiologicalUnit
- BiologicalUnit/Quat
- Blender
- Bnitools
- Bond
- Bondpack
- Bounding Box
- Builder
- Button
- Button mode name
- CASTp
- CBC
- CCTBX
- CCTBX-fedora32
- CGOCylinder
- CGO Text
- CMPyMOL
- CMYK
- COLLADA
- Cache
- CalcArea
- Capture
- Cart to frac
- Cartoon
- Cartoon Helix Settings
- Cartoon all alt
- Cartoon color
- Cartoon cylindrical helices
- Cartoon discrete colors
- Cartoon dumbbell length
- Cartoon dumbbell radius
- Cartoon dumbbell width
- Cartoon fancy sheets
- Cartoon flat cycles
- Cartoon flat sheets
- Cartoon gap cutoff
- Cartoon helix radius
- Cartoon highlight color
- Cartoon nucleic acid color
- Cartoon nucleic acid mode
- Cartoon oval length
- Cartoon oval quality
- Cartoon oval width
- Cartoon putty radius
- Cartoon putty scale max
- Cartoon putty scale min
- Cartoon putty transform
- Cartoon rect length
- Cartoon rect width
- Cartoon ring mode
- Cartoon ring transparency
- Cartoon round helices
- Cartoon sampling
- Cartoon side chain helper
- Cartoon smooth loops
- Cartoon transparency
- Caver2
- Caver3
- Cavity cull
- Ccp4 contact
- Ccp4 ncont
- Ccp4 pisa
- Cd
- Cealign
- Cealign plugin
- Cell
- Center
- Center of mass
- Centerofmass
- Centroid
- CgoCircle
- Cgo arrow
- Cgo grid
- CheatSheet
- Check Key
- Chem comp cartn use
- Chempy
- Cheshift
- Chromadepth
- Cif keepinmemory
- Cif use auth
- Clip
- Cls
- Cluster Count
- Cluster mols
- Collada geometry mode
- CollapseSel
- Color
- ColorByDistance
- ColorByGroup
- ColorByRMSD
- Color By Mutations
- Color Objects
- Color Values
- Color by conservation
- Color h
- Colorama
- Colorblindfriendly
- Colorbydisplacement
- Command Line Options
- Commands
- Config Mouse
- Connect cutoff
- Connect mode
- ConnectedCloud
- Consistent View/ Map Inspect
- Contact Surface
- Contact map visualizer
- Copy
- Count Atoms
- Count Frames
- Count States
- Count molecules in selection
- Covers
- Create
- CreateAtom
- CreateSecondaryStructure
- Cubes
- Current events
- Cycle Valence
- Cycle valence
- Cylinder shader ff workaround
- Cyspka
- DSSP Stride
- DYNMAP
- Dash Gap
- Dash Length
- Dash Radius
- Dash Round Ends
- Dash Width
- Dash color
- Dash gap
- Dash length
- Dash round ends
- Dash width
- Defer builds mode
- Dehydron
- Delete
- Deprotect
- Depth cue
- Deselect
- Disable
- Discrete objects
- Displacementmap
- Display CCP4 Maps
- Display SiteMap Maps
- Display scale factor
- Displaying Biochemical Properties
- Distance
- DistancesRH
- Distancetoatom
- DivScore
- Dot radius
- Dot width
- Dots
- Draw
- DrawBoundingBox
- DrawGridBox
- Draw Protein Dimensions
- Dss
- Dssp
- Dssr block
- Dump
- Dump2CGO
- Dunbrack Rotamers
- Dynamic mesh
- DynoPlot
- EMovie
- EZ-Viz
- Edit
- Edit Keys
- Editing atoms
- Elbow angle
- Ellipsoid
- Ellipsoid color
- Ellipsoid quality
- Ellipsoid scale
- Ellipsoid transparency
- Ellipsoids
- Enable
- Ending
- Ex
- Example Scripts
- Examples of nucleic acid cartoons
- Expand To Surface
- Extend
- Extend (selection operator)
- Extensions
- Extra fit
- Extract
- Fab
- Feedback
- Fetch
- FetchLocal
- Fetch Host
- Fetch Path
- Fetch type default
- Fetching scripts
- Field Of View
- FilterByMol
- FindObjectsNearby
- FindSurfaceResidues
- Find buried waters
- Find pairs
- Find symbol
- Findseq
- Fit
- Flag
- Flatten obj
- Fnab
- FocalBlur
- Focus alignment
- Fog
- Fog start
- Fork
- Forster distance calculator
- Forward
- Fragment
- Frame
- Frame slider
- Full Screen
- Full screen
- Fuse
- GLSL Shaders
- GROMACS Plugin
- Gallery
- Geo Measures Plugin
- Geometry export mode
- Get
- GetNamesInSel
- GetRotationMatrix
- Get Angle
- Get Color Indices
- Get Coordinates I
- Get Coordinates II
- Get Dihedral
- Get Distance
- Get Extent
- Get Frame
- Get Model
- Get Names
- Get Pdbstr
- Get Position
- Get State
- Get Symmetry
- Get Title
- Get Type
- Get Version
- Get View
- Get chains
- Get color index
- Get color tuple
- Get colors
- Get coords
- Get coordset
- Get fastastr
- Get legal name
- Get names of type
- Get object list
- Get object matrix
- Get raw alignment
- Get raw distances
- Get sasa relative
- Get session
- Get type
- Get unused name
- Git admin
- Git authors
- Git include
- Git install scripts
- Git intro
- Git script guidelines
- GoogleSearch
- Gradient
- Grepsel
- Grepset
- Grid max
- Grid mode
- Grid slot
- Group
- Gyration tensor
- H Add
- H Fill
- Half bonds
- Hash max
- Hbplus
- Helicity check
- Hide
- Hide underscore names
- HighlightAlignedSS
- Homology Modeling
- Huge surfaces
- Id Atom
- Ideas
- Identify
- Ignore case
- Ignore case chain
- ImmersiveViz
- Inchoates pymolrc
- Index
- Indicate
- Inertia tensor
- InterfaceResidues
- Internal Gui
- Internal feedback
- Internal gui
- Internal gui control size
- Internal gui mode
- Internal gui width
- Internal prompt
- Intra fit
- Intra rms
- Intra rms cur
- Intra xfit
- Invert
- Isodot
- Isolevel
- Isomesh
- Isoslider
- Isosurface
- Iterate
- Iterate sses
- Join states
- Jump
- Jupyter
- Kabsch
- Key Wait
- Keyboard Shortcut Menu
- Label
- Label anchor
- Label angle digits
- Label color
- Label dihedral digits
- Label distance digits
- Label font id
- Label outline color
- Label position
- Label shadow mode
- Label size
- LatticeGenerator
- Launching From a Script
- Launching PyMOL
- Leap Motion
- LigAlign
- Light
- Light count
- Line color
- Line smooth
- Line width
- Lines
- Linux Install
- Lisica
- ListSelection2
- List Colors
- List Secondary Structures
- List Selection
- Load
- LoadDir
- Load Model
- Load Traj
- Load aln
- Load brick
- Load coords
- Load img stack
- Load new B-factors
- Loadall
- Ls
- MAC Install
- MOLE 2.0: advanced approach for analysis of biomacromolecular channels
- MSMS
- MacOSX-specific .pymolrc file
- Main Page
- MakeVinaCommand
- Make Figures
- Making Movies
- Map Double
- Map Set Border
- Map Trim
- Map auto expand sym
- Map double
- Map new
- Map set
- Mappend
- Mark center
- Mask
- Matrix Copy
- Matrix mode
- Matrix reset
- Max ups
- Mclear
- Mcsalign
- Mdo
- Mdump
- Measure Distance
- Mem
- Mesh
- Mesh color
- Mesh lighting
- Mesh mode
- Mesh negative visible
- Mesh quality
- Mesh type
- Mesh width
- Meter Reset
- Middle
- Min mesh spacing
- Minimize ob
- Mmatrix
- Mobile
- Model Space and Camera Space
- Modeling and Editing Structures
- Modevectors
- Mole
- Molecular Sculpting
- Monitor file continuously
- Monitors Hardware Options
- Morph
- Morpheasy
- Morpheasy linear
- Motif
- Mouse Controls
- Mouse Settings
- Mouse modes
- Move
- Movie.produce
- Movie.roll
- MovieSchool
- MovieSchool 1
- MovieSchool 2
- MovieSchool 3
- MovieSchool 4
- MovieSchool 5
- MovieSchool 6
- Movie color fade
- Movie fade
- Movie fps
- Movie from scenes
- Movie loop
- Movie panel
- Movie pdf
- Movit
- Mplay
- Mpng
- Mset
- Msms surface
- Mstop
- MtsslDock
- MtsslPlotter