== Talairach (-<no>talairach) ==

This computes the affine transform from the orig volume to the MNI305
atlas using Avi Snyders 4dfp suite of image registration tools,
through a FreeSurfer script called talairach_avi. Several of the downstream
programs use talairach coordinates as seed points. You can/should check
how good the talairach registration is using
{{{
tkregister2 --s subjid --fstal
}}}
You must have an "fsaverage" subject in
your SUBJECTS_DIR. tkregister2 allows you to compare the orig volume
against the talairach volume resampled into the orig space. If you modify
the registration, it will change the talairach.xfm file. Your edits will
be *not* be overwritten unless you run recon-all specifying -clean-tal.
Run 
{{{
tkregister2 --help
}}}
for more information.
Creates the files mri/transform/talairach.auto.xfm and talairach.xfm.
The flag -tal-check will check the registration against known-good transforms.
Adding the flag -use-mritotal after -talairach will use the MINC program
mritotal (see Collins, et al., 1994) to perform the transform.

=== Programs ===

 * [[talairach_avi]]
 * [[talairach_afd]]