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Dear FreeSurfer experts, I have used "mri_annnotation2label" and "mri_label2vol" to change the parcellation output of FreeSurfer e.g the lh.aparc.annot into an ".nii" so i can see the parcels in Mricro. Now I can see the parcels just on the cortex not on the whole graymatter. The first question I have is that, is the parcellation done on the whole graymatter? And if yes, is there a way that I can see the volumes on the whole graymatter, not just on the cortex? I would be grateful if you could help me. best regards, Maedeh,
Have you looked at aparc+aseg.mgz? You can change it to nii with mri_convert aparc+aseg.mgz aparc+aseg.nii
On 8/27/18 5:54 AM, Maedeh Khalilian wrote:
External Email - Use Caution
Dear FreeSurfer experts, I have used "mri_annnotation2label" and "mri_label2vol" to change the parcellation output of FreeSurfer e.g the lh.aparc.annot into an ".nii" so i can see the parcels in Mricro. Now I can see the parcels just on the cortex not on the whole graymatter. The first question I have is that, is the parcellation done on the whole graymatter? And if yes, is there a way that I can see the volumes on the whole graymatter, not just on the cortex? I would be grateful if you could help me. best regards, Maedeh,
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Douglas Greve -
Maedeh Khalilian