Your guide to YASARA View
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Essentials
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What you really have to know
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Selections
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Tell YASARA what you want
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Commands
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Tell YASARA what to do
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File
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Load and save the scene or parts of it
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New scene - Start again
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PDB files - Load and save objects in plain PDB format
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YASARA objects - Load and save complete objects
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YASARA scenes - Load and save the entire scene
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OpenBabel
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Import and export molecules using OpenBabel
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Screenshots
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Save plain or ray-traced screenshots
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MPEG movies - Encode plain or ray-traced animations
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Simulation snapshots - Load and save simulation states
Load simulation snapshots to restore atom positions and velocities at a certain time
or
save them in periodic time intervals
. Atom positions without velocities can also be
saved
and
restored
in XTC format, which minimizes the required storage space.
°
LoadSim
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Load simulation snapshot in sim format
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LoadXTC<Obj|All>
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Load simulation snapshot in XTC format
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SaveSim
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Save simulation snapshots in sim format
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SaveXTC
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Save simulation snapshots in XTC format
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Exit
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Quit YASARA
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Edit
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Change content and properties of the soup
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Simulation
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Simulate the soup
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Analyze
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Analyze the soup
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View
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Change the appearance of the soup
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Effects
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Change and animate the scene
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Options
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Other commands
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Window
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Change the display properties
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Help
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Access the documentation and solve problems
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Index
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All commands in alphabetic order
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Recipes
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Answer complex questions
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Macros
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Automate your work with Yanaconda
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Plugins
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Extend YASARA with your own functions
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Scripts
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Use YASARA as a Python module
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Troubleshooting
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Get things going