Hi Antonella
the atlas is not guaranteed to be correct. If it were we would just take
the labels from it :) The only way to tell if it is correct is to look at
the segmentations on top of the MR and see if they follow the visible
boundary
To get the surfaces you should do
tkmedit SUBJECT1 brainmask.mgz lh.white \
-aux T1.mgz -surfs \
-segmentation aseg.mgz $FREESURFER_HOME/FreeSurferColorLUT.txt
cheers
Bruce
On Tue, 26 Jul 2011, Antonella Kis
wrote:
Hi,
I would like to check if my subcortical segmentation is correct so I was
running:
tkmedit SUBJECT1 brainmask.mgz \
-aux T1.mgz -surfs \
-segmentation aseg.mgz $FREESURFER_HOME/FreeSurferColorLUT.txt
1). Pial (red line), and white (yellow line) surfaces are shown and I wonder
how I can add a green lie for my orig surface?
2). After I load the aparc+aseg.mgz is theer a way to load and overlay the
original/correct atlas so I can see if my segmentation is correct?
Thank you very much.
Antonella
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