afni

Afni

The Automated Functional NeuroImaging program is free software developed by Robert Cox, now at NIH. It runs as a freestanding program on a variety of Unix platforms. Both source code and binary executables are available for download. Note, however, that to go through our preprocessing tutorial, you'll also want programs that reconstruct and rename your raw files, a script to convert the afni files into MGH's preferred format (afnireg2bshort), the MGH programs and, to run the MGH programs, Matlab. For some of these files, go here. If you want to try afni out without worrying about all the other programs necessary for preprocessing, download the files from the Block Analysis area and consult the Block Analysis Tutorial.

AFNI Resources

Official Resources
- The Afni home page (search in upper right corner)
Local Resources
- Local Downloads: Misc programs and Tutorial data
- Scansheet for the tutorial data
- Afni Preprocessing and Block Analysis Tutorial as Word Doc
- Preprocessing
  - Preprocessing
  - Anatomical Preprocessing and Centering
- Standard Analysis
  - Block Analysis
  - Event Related Analysis (with Afni and MGH)
- Special Analyses
  - Talairach Realignment
  - Creating Waver Files
  - Group Analysis (Averaging)
  - How to rotate an image, make isotropic voxels and split a multibucket image for Pfiles/Functional Files and for 2D and 3D anatomicals Also shows interpolation (so you can get nicely smoothed activations).
- Misc