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  • 5. AFNI (and afni)

5. AFNI (and afni)¶

  • 5.1. GUI Guide
    • 5.1.1. AFNI GUI: Startup
    • 5.1.2. AFNI GUI: Main controller
    • 5.1.3. AFNI GUI: Image window
    • 5.1.4. AFNI GUI: Graph window
    • 5.1.5. AFNI GUI: Overlay panel
    • 5.1.6. AFNI GUI: Datamode panel
    • 5.1.7. AFNI GUI: Chooser menu
    • 5.1.8. AFNI GUI: Maps
  • 5.2. List of all AFNI GUI tips and keyboard shortcuts
    • 5.2.1. Overview
    • 5.2.2. AFNI For Absolute Beginners
    • 5.2.3. Cursor Shapes and Right-Click Popup Menus
    • 5.2.4. Hidden Clicks to Activate AFNI Features
    • 5.2.5. Keyboard Shortcuts: Image Viewer Window
    • 5.2.6. Keyboard Shortcuts: Graph Viewer Window
    • 5.2.7. Keyboard Shortcuts in the Threshold Slider
  • 5.3. List of all AFNI environment variables
    • 5.3.1. Overview
    • 5.3.2. Intro: Unix env vars used by AFNI
    • 5.3.3. Setting env variables in file ~/.afnirc
    • 5.3.4. Env vars: the looong list
    • 5.3.5. Vars for realtime functionality
    • 5.3.6. Vars specific to NIML I/O
    • 5.3.7. Vars for 3dDeconvolve
    • 5.3.8. ATLAS and WHEREAMI env variables
    • 5.3.9. Interacting with other progs and miscellany
  • 5.4. List of all startup tips
  • 5.5. List of all AFNI colorbars
    • 5.5.1. Colorbars (<=256 colors) and example images
    • 5.5.2. Colorbars (>256 colors) and example images

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Table of Contents

  • 1. Installation and Background
  • 2. Starting with AFNI
  • 3. Educational resources
  • 4. All program helps
  • 5. AFNI (and afni)
    • 5.1. GUI Guide
    • 5.2. List of all AFNI GUI tips and keyboard shortcuts
    • 5.3. List of all AFNI environment variables
    • 5.4. List of all startup tips
    • 5.5. List of all AFNI colorbars
  • 6. SUMA
  • 7. FATCAT
  • 8. Statistics
  • 9. Templates & Atlases
  • 10. Non-human processing
  • 11. Tutorials, Examples
  • 12. Demo Material
  • 13. AFNI Codex: Code Examples from publications
  • 14. Citing
  • 15. Developer Documentation
  • 16. Contributors
  • 17. Glossary
  • 18. Main AFNI pages

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