The label ctx_lh_G_parietal_sup is in the aparc.a2009s and not the aparc, so try aparc.a2009s+aseg.mgz doug
On 08/12/2013 12:29 PM, lorenzo pasquini wrote:
Dear Freesurfer users,
I used freesurfer to extract the cortical thickness of several regions, which are saved in the aparc.a2009s.stats text file.
To create a mask of this regions for further analyzes I used the command line:
mri_binarize --i aparc+aseg.mgz --min number --max number -- o testname.mask.nii as numbers I used for example 11126.5 and 11127.5 (ctx_lh_G_parietal_sup) derived from the aparc.a2009.s FreesurferColorLUT table
Unfortunately, the created mask is empty and freesurfer "tells" me that there are no voxels in the created nii image. Did anybody experience the same problem? Am I using the wrong binarization command line? Should I download an extra toolbox? How can I solve this problem? Thank you very much and kind regards,
Lorenzo Pasquini
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