TOPTOC

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Installation, Configuration & Learning Installation Linux MAC Windows Stereo 3D Display Linux XFree86 Configuration Using PyMol Launching Launching PyMOL Command Line Options Launching From a Script Mouse Controls Objects and Selections Working with Objects Working with Selections Selector Quick Reference Single-word Selectors Property Selectors Selection Algebra Selection Macros	Commands, Representations & Settings PyMOL Commands Settings (Documented) All Representations Lines Sticks Ball and Sticks Cartoon Surface Mesh Spheres Dots Coloring Color
Physico-chemical Modeling Biochemical Properties Displaying biochemical properties Surfaces and Voids Modeling and editing structures Editing Atoms Molecular sculpting Homology modeling	Images & Movies Image Manipulation Labels Photoshop/GIMP Stereo Figures Publication-quality images PovRay Making Movies Codecs
Extending, Embedding & Scripting PyMOL Development Scripting Example Scripts Script Library Plugins Electrostatics and energy minimization. APBS Plugin Protein_contact_potential rtools Tutorial on writing plugins Others High-Level Applications Crystallography Applications Symmetry|Symmetry Electron Density NMR Applications Working with Structure Families Superimposition and RMSD NMR Restraints and Analysis	Third Party Applications O SURFNET Python Integration PyMol_Integration Nuccyl -- Nuccyl is a great PyMol extension CASTp -- Binding and Active site prediction CCTBX -- Computational Crystallography Toolbox ProMOL S2S Arbitrary_Graphics_Objects