Hi Judit,
the fornix is labeled in the aseg, not the parcellation, although this is not the default). If you rerun mri_cc with the -fornix option it will write a volume named mri/fornix.mgz with the fornix in it.
cheers, Bruce
On Wed, 1 Jul 2009, Judit Haasz wrote:
Hi,
We are trying to extract certain regions from FreeSurfer segmentation. There are couple of regions which are not found in the output files. We are currently searching for the regions in 13 output files. The regions are the following: right fornix (508), left fornix (558), right PLIC (158), left PLIC (157) and the starting, way and end points for cingulum and CST.
Could you let us know in which file would we be able to find these regions? Is it possible that some regions are empty?
Thank you for your help
Judit Haasz _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer