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
- 2.5. List of all AFNI environment variables
- 2.5.1. Overview
- 2.5.2. Intro: Unix env vars used by AFNI
- 2.5.3. Setting env variables in file ~/.afnirc
- 2.5.4. Env vars: the looong list
- 2.5.5. Vars for realtime functionality
- 2.5.6. Vars specific to NIML I/O
- 2.5.7. Vars for 3dDeconvolve
- 2.5.8. ATLAS and WHEREAMI env variables
- 2.5.9. Interacting with other progs and miscellany
- 2.6. List of all startup tips
- 2.7. List of all AFNI colorbars
- 2.8. Classified program list
- 2.8.1. Interactive viewer GUIs
- 2.8.2. Voxelwise calcs, esp. stats and tests
- 2.8.3. Get info/stats within ROIs
- 2.8.4. Build FMRI pipelines
- 2.8.5. Align/register/warp/axialize spatially
- 2.8.6. SUMA surface calculations, formats and viewing
- 2.8.7. Mask/skull-strip/segment
- 2.8.8. Make/edit/evaluate stimulus timing files
- 2.8.9. Edit dset headers
- 2.8.10. Compute various numbers from datasets
- 2.8.11. Blur and smooth dsets
- 2.8.12. Volume editing/image processing
- 2.8.13. Update AFNI, install software, check setup/info (not demos)
- 2.8.14. Simple dset calcs (-> make new dsets)
- 2.8.15. Resting state FMRI parameters
- 2.8.16. Region-wise group analysis
- 2.8.17. Make/edit correlation matrices
- 2.8.18. Make/edit ROIs and clusters, resample
- 2.8.19. Edit dsets: concatenate, split, add/remove slices
- 2.8.20. Drive AFNI/SUMA, make images/snapshots/montages
- 2.8.21. Deal with 1D time series
- 2.8.22. DWI/DTI/diffusion-related
- 2.8.23. Convert surfaces from other software
- 2.8.24. Convert statistics and p-values
- 2.8.25. Compare dset volumes (masks or valued)
- 2.8.26. Time series pre-processing
- 2.8.27. Time series analysis
- 2.8.28. Quality checks (for 3D+time datasets or results)
- 2.8.29. Miscellaneous file manipulations
- 2.8.30. MVM modelling of (correlational or structural) matrices
- 2.8.31. Interact with multi-echo data
- 2.8.32. Generate model 1D time series
- 2.8.33. Fourier related, time series/freq
- 2.8.34. Dset histograms
- 2.8.35. Download/install demos
- 2.8.36. DICOM info and conversion
- 2.8.37. Copy/convert/manipulate dsets
- 2.8.38. Changing dset spatial structure
- 2.8.39. Change dset temporal structure
- 2.8.40. Supplementary/open programs included in AFNI
- 2.8.41. Supplemental/underlying programs (no desc needed)
- 2.8.42. Simulate/generate dsets
- 2.8.43. Miscellaneous visualization tools
- 2.8.44. Miscellaneous utilities
- 2.8.45. Unclassed
- 2.8.46. Retired (no longer in the build)
- 2.8.47. R programs (in R; called by others)