Paolo wrote:
In the meanwhile i did some research, and it looks like freesurfer does not use MNI152 as default template, am i right?
Correct, it uses the MNI305
it seems that the default template is the fsaverage subject, which in fact does not look like very realistic.
I don't know what you mean here. It is blurry, but that's the way it is for affine transformations.
Is there any way to get a realistic brain & segmentation that is "idealized" enough, and still in talairach space (freesurfer space)?
As Bruce mentions, you can use the aseg.mgz or aparc+aseg.mgz. Again, these are coarse because they are the product of an affine registration, but they might do what you need.
maybe the MNI152 after recon-all and mri_transform to apply back the transformation?
You can transform to mni152 space with mri_vol2vol with the --mni152reg option. doug
i am sorry if these questions look unreasonable, i am new of freesurfer, and still have problem orienting myself in the documentation :)
best, Paolo
On 05-Nov-11 00:57, Paolo wrote:
Hello
I am a new user of freesurfer. I was wondering whether the brain regions for the MNI152 dataset are available anywhere (i mean the template brain regions for the default MNI152 template).
I have also another question: i have the dti fiber tracts extracted and computed and already in .trk format. I was wondering: to bring them back into the template MNI152 space, is it sufficient to apply the talairach.xfm transformation matrix to the vertex data, or do i also need to use the m3z files (which look like a nonlinear deformation field)?
thanks in advance! Paolo
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer