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Thanks Douglas, looks like it only returns the whole cerebellum volume (see attached).
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Douglas N. Greve dgreve@MGH.HARVARD.EDU Date: Wednesday, 14 May 2025 at 16:38 To: freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Striatum and cerebellum parcellation stats from Choi2012 and Buckner 2011 Have you tried using mri_segstats, eg, mri_segstats --seg cerebellum_17_network_${mask_option}_mask.nii.gz --sum cerebellum_17_network_${mask_option}_mask.stats
On 5/8/2025 4:15 AM, Payam Sadeghi Shabestari wrote:
External Email - Use Caution Hi FS team, I'm trying to obtain anatomical statistics for the regions defined in the Choi 2012 and Buckner 2011 parcellations, but I couldn't figure out how to get stats on them. I already did: for mask_option in "${mask_options[@]}"; do mri_vol2vol --mov $SUBJECTS_DIR/$subject_id/mri/norm.mgz \ --s $subject_id \ --targ $SUBJECTS_DIR/MNI152/buckner_atlas/17_network_${mask_option}_mask.nii.gz \ --m3z $SUBJECTS_DIR/MNI152/mri/transforms/talairach.m3z \ --noDefM3zPath \ --o $SUBJECTS_DIR/$subject_id/mri/cerebellum_17_network_${mask_option}_mask.nii.gz \ --inv-morph \ --interp nearest Thank you and best regards, Payam
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