Welcome to AFNI’s documentation!¶
- 1. Installation and Background
- 2. Educational resources
- 2.1. AFNI Bootcamp Recordings
- 2.2. AFNI Bootcamp handouts
- 2.3. (Useful) Outside lectures
- 2.4. List of all AFNI GUI tips and keyboard shortcuts
- 2.5. List of all AFNI environment variables
- 2.6. List of all startup tips
- 2.7. List of all AFNI colorbars
- 2.8. Classified program list
- 2.9. Shell script and command line tips
- 3. All program helps
- 4. AFNI Codex: Code Examples from publications
- 5. SUMA
- 6. FATCAT
- 7. Statistics
- 7.1. When and how to center a variable?
- 7.2. Deconvolution Analysis of FMRI Time Series Data
- 7.3. Nonlinear Regression Analysis of FMRI Time Series Data (NLfim)
- 7.4. Notes on 3dREMLfit
- 7.5. Analysis of Variance (ANOVA)
- 7.6. Multivariate modeling (MVM) approach for group analysis
- 7.7. Linear Mixed-Effects (LME) Modeling
- 7.8. Mixed-Effects Meta Analysis (MEMA)
- 7.9. False Discovery Rate (FDR)
- 7.10. Nonparametric Statistical Analysis of FMRI Data
- 8. Templates & Atlases
- 9. Non-human processing
- 10. Tutorials, Examples
- 10.1. Self Guided Demo Scripts
- 10.2. AFNI GUI features
- 10.3. AFNI general behavior
- 10.4. APQC: afni_proc.py quality control
- 10.5. FATCAT: DWI {Pre-pre-, Pre-, Post-pre}processing
- 10.6. FATCAT Visualization
- 10.7. Walnut Brain
- 10.8. Drawing ROIs
- 10.9. Cluster Explorer
- 10.10. FATCAT Matrix Plot
- 10.11. 3dMVM Validator
- 10.12. Automatic Images
- 10.13. Sound features in AFNI
- 10.14. Working with ROIs
- 10.15. Using FreeSurfer
- 10.16. Reface and Deface datasets
- 10.17. SurfLayers Demo
- 10.18. Meta analysis examples
- 11. Demo Material
- 12. Developer Documentation
- 13. References, papers and citations
- 14. Contributors
- 15. Glossary
- 16. Main AFNI pages