Hi Nazanin
the nonlinear registration is actually to our segmentation atlas (*.gca).
I guess you could try using something else, but you should extract a mean
intensity image from the gca as a target, not the MNI305. You can do this
with:
mri_convert -nth 0 <file>.gca mean_gca.mgz
FYI, this:
mri_convert -nth 1 <file>.gca labels_gca.mgz
would give you the highest prior label at each spot (and 2 would give you
the prior)
cheers
Bruce
On Mon, 30 Oct 2017, N Saf wrote:
Dear Experts,
In the volume-based stream, if I'm right the FreeSurfer does two registration
with MNI305 ,one affine and one
nonlinear , is it possible to perform the nonlinear registration somewhere else
and then use the result in
FreeSurfer and run the rest of the analysis ?
thank's alot for your great support.
BRG,
Nazanin
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