I think it might have to do with the format of your output file - perhaps try .mgz? This is what I used.
Then open the surface and use the "overlay" option to overlay your ROI as a surface overlay.
Trisanna
-- Ph.D. Candidate McGill University Integrated Program in Neuroscience Psychology
On Mon, Oct 3, 2016 at 3:14 PM, Joel Bruss brussj@healthcare.uiowa.edu wrote:
Doug-
I'm really sorry to keep pestering you about this but I just can't seem to get this to work. See my replies below:
On 09/30/2016 02:00 PM, Douglas N Greve wrote:
First, bring up the ROI on the volume along with the surface in the volume. You can do this with FreeView. Make sure that the ROI intersects the surface.
Yes, this looks fine
Then run mri_vol2surf so sample the binary ROI volume onto the surface.
This is what I ran: mri_vol2surf --src $SUBJECTS_DIR/subA/tmpdir/roi.mgz \ --out $SUBJECTS_DIR/subA/tmpdir/rh.roiS.mgh \ --regheader subA --hemi rh --surf pial
You can view the ROI on the surface by loading it as an overlay.
This is a volume or a surface now? Is it just a volume resampled to the surface space? I can't get it to load in freeview as a surface (it just crashes), and it doesn't look like anything as an overlay.
Then run mri_cor2label using the surface-sampled ROI as input and specifying --surf (see the --help) to make this a surface-based label. You can also view this label in the surface in freeview. Finally, run mri_label2label using the --regmethod surface
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