Hi Bruce,
Thanks for your response! Within aseg, however, there is a group of voxels with intensity 17 (and therefore comprising the left hippocampus). I was mainly wondering whether there is a way to assign a different intensity value to each individual voxel in aseg (so that for instance if you had 40,000 voxels in aseg.mgz then you would assign each one with a different intensity value so that you would end up with 40,000 "ROIs" ). Hope this clarifies a little bit my semi-abstract question!
Thanks again, Panos
On 7/7/19, 9:30 PM, "freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Bruce Fischl" <freesurfer-bounces@nmr.mgh.harvard.edu on behalf of fischl@nmr.mgh.harvard.edu> wrote:
Hi Panos
I'm not sure I understand. Isn't that already what the aseg is? E.g. voxel intensity 17 means left hippocampus?
Bruce On Sun, 7 Jul 2019, Fotiadis, Panagiotis wrote:
> > Hello, > > > > I was wondering whether there is a way to assign a different intensity value on each voxel within a > parcellation file (such as aseg.mgz). What I’m essentially trying to do is create a file (using the > aseg.mgz file as a template) where each voxel represents a different ROI. I can think of a way to do > that in Freeview for each individual voxel but I wasn’t sure whether there was a more > efficient/automated way in either bash or matlab. > > Let me know if the above doesn’t make any sense, and thanks in advance! > > > > Best, > > Panos > > > > >