Hi Bruce,

I'm sorry, I didn't phrase the question correctly. I do know why the orig.mgz comes out like that, however, I don't now why does the inflated surface in tksurfer look as if a chunk is missing out of it.

Thanks again, Panos

Hi Panos,

you probably want to get a neuroradiologist to look at that scan.

cheers Bruce On Tue, 30 Jul 2013, pfotiad@nmr.mgh.harvard.edu wrote:

...

Hi,

I ran tksurfer (with the inflated surface option) on a couple of my subjects that had a major deformation in their orig.mgz file and the inflated surface of tksurfer looked as if a chunk was missing off of it at the position where the deformation is located. Is that normal?

I have attached two images to illustrate what I mean: One of an axial slab of the orig.mgz file where the deformation is shown, and one of the inflated surface of the same subject in tksurfer.

Thank you for your time, Panos _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer