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  • AFNI, SUMA and FATCAT: v22.1.14 »
  • 11. Tutorials, Examples »
  • 11.12. Automatic Images

11.12. Automatic Images¶

  • 11.12.1. Overview
    • Auto-image making in AFNI
  • 11.12.2. Using @chauffeur_afni
    • Introduction
    • Examples, and how to run them
    • Ex. 0: Simple underlay viewing
    • Ex. 1: Moving/selecting view slices
    • Ex. 2: Underlay and overlay viewing (mask example)
    • Ex. 3: Focus box to select view slices
    • Ex. 4: Overlay beta coefs and threshold with stats
    • Ex. 5: Overlay beta coefs and threshold translucently with stats
    • Ex. 6: Overlay beta coefs, threshold with stats and clusterize
    • Ex. 7: Overlay beta coefs, threshold+clusterize translucently
    • Ex. 8: Check alignment with edge view
    • Ex. 10: 4D mode
    • Ex. 11: Other examples of functionality
    • Troubleshooting
  • 11.12.3. Using @snapshot_volreg
    • Examples
  • 11.12.4. Using @djunct_4d_imager
  • 11.12.5. Using 2dcat
    • Introduction
    • Ex. 0: Combine images subject- and slice-wise
    • Ex. 1: Combine subbrick images of a 4D dset
    • Ex. 2: Combine (stats) images from many subj

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Table of Contents

  • 1. Installation and Background
  • 2. Starting with AFNI
  • 3. Educational resources
  • 4. All program helps
  • 5. AFNI Codex: Code Examples from publications
  • 6. SUMA
  • 7. FATCAT
  • 8. Statistics
  • 9. Templates & Atlases
  • 10. Non-human processing
  • 11. Tutorials, Examples
    • 11.1. Self Guided Demo Scripts
    • 11.2. AFNI GUI features
    • 11.3. AFNI general behavior
    • 11.4. APQC: afni_proc.py quality control
    • 11.5. FATCAT: DWI {Pre-pre-, Pre-, Post-pre}processing
    • 11.6. FATCAT Visualization
    • 11.7. Walnut Brain
    • 11.8. Drawing ROIs
    • 11.9. Cluster Explorer
    • 11.10. FATCAT Matrix Plot
    • 11.11. 3dMVM Validator
    • 11.12. Automatic Images
      • 11.12.1. Overview
      • 11.12.2. Using @chauffeur_afni
      • 11.12.3. Using @snapshot_volreg
      • 11.12.4. Using @djunct_4d_imager
      • 11.12.5. Using 2dcat
    • 11.13. Sound features in AFNI
    • 11.14. Working with ROIs
    • 11.15. Using FreeSurfer
    • 11.16. Reface and Deface datasets
    • 11.17. SurfLayers Demo
    • 11.18. Meta analysis examples
  • 12. Demo Material
  • 13. Developer Documentation
  • 14. References, papers and citations
  • 15. Contributors
  • 16. Glossary
  • 17. Main AFNI pages

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