Is it possible to get CNR info on a masked region? I have tried these commands but see only unexpected tiny values or NaN for results:

mri_binarize --i $SUBJECTS_DIR/$subj/mri/aseg.mgz --match $mndx --o $tmpmask mri_mask $SUBJECTS_DIR/$subj/mri/norm.mgz $tmpmask $norm_tmpmask mri_cnr $SUBJECTS_DIR/$subj/surf $norm_tmpmask

I have used the --match $mndx for each of the 45 regions listed in the aseg stats report. For hippocampus, for example: --match 17 -- match 53 but all give NaN or values <= .003 for total CNR.

Thanks for any suggestions.

Kathy Pearson