p.s. sorry, then you'll need to rerun the cortical parcellation steps afterwards (mris_ca_label). The full mris_register command line would be:
set sd=$SUBJECTS_DIR/$subject set ldir=$SUBJECTS_DIR/$subject/label set sdir=$SUBJECTS_DIR/$subject/surf mris_register -l $ldir/lh.central_sulcus \ $FREESURFER_HOME/lh.destrieux.simple.2009-07-29.gcs S_central \ $sdir/lh.sphere $FREESURFER_HOME/average/lh.average.curvature.filled.buckner40.tif $sdir/lh.sphere.reg
On Thu, 15 Sep 2011, Omer Tal wrote:
Hey there,
I was excited to find out that Freesurfer has two atlases built in which do cortical parcellation as I am trying to do analysis on the precentral gyrus ROI only. However, when creating a mask showing the pre-central gyrus parcellation, I noticed that in the middle of the gyrus the algorithm fails and skips to the next gyrus over (the post-central gyrus). I added an image showing the failed parecellation (not sure if it shows up).
Is there any solution around this? Is there where I can change parcellation options to maybe help better restrict the automatic algorithm? Or is there an easy way to redirect/train the algorithm?
Thank you very much for any advice and your time,
Omer Tal, M.S.
UCSD Center for Functional MRI