Brain Mapping Center

These instructions will be revisited in the near future, as we consider how AFNI fits into brain mapping.

How To AFNI

Overview:

Here is the basic details on how to:-import data in AFNI-display your data (functional and structural)-warp your data into talairach space

Details:

importation of data: to3d
usage: 3D:hglobal:himage:nx:ny:nz:fname

eg: 3D:0:0:256:256:1.2:foo.img

where:
hglobal=#of bytes to skip at the beginning of the file
himage=#of bytes to skip at the beginning of each slice
nx,ny,nz= file dimensions
fname= filename...

to3d -help (for more info)

data display: afni (type that at a prompt)

You need to have afni images in the directory you start from (cwd).
-define datamode, warp anatomy

afni -help (for more info

warping: (within afni)

original view
ac-pc aligned
-define markers, allow edits, set, quality
talairach view
-define markers, allow edits, set, quality