User Guide
Welcome to the 3decision user guide. It describes 3decision 2.5.
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Get started
New to 3decision? Start here.
- Getting Started: what 3decision is, the homepage, and the main pages
- Tutorials: learn a feature step by step, with an example
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How-to guides
Short steps for a specific task, for example:
- Open a list of structures by code
- Superpose structures
- Find pockets similar to a binding site
- Show the electron density of a public structure
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Features
What each part of 3decision does, and all its options.
- Search and Search Results
- Display and analyze structures: Workspace, 3D viewer, electron density, superposition
- Structural searches: pocket similarity and interaction search
- Data management: projects, permissions and user groups
- Structure registration
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Concepts
How 3decision works behind the scenes: search ranking, superposition, pockets, electron density.
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Use cases
Complete workflows that combine several features.
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API and plugins
- API documentation: access 3decision programmatically
- Plugins: use 3decision from MOE, PyMOL, ChimeraX, Maestro and Nanome
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Release notes
What's new in each version: Release Notes
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Troubleshooting
Network configuration, proxy issues, SSO errors and other common problems: Troubleshooting