Try this cd $SUBJECTS_DIR/subject
mri_aparc2aseg --s subject --labelwm --hypo-as-wm --rip-unknown --volmask --o mri/wmparc.a2009s.mgz --a2009s --ctxseg aparc.a2009s+aseg.mgz mri_segstats --seg mri/wmparc.a2009s.mgz --sum stats/wmparc.a2009s.stats --pv mri/norm.mgz --excludeid 0 --brain-vol-from-seg --brainmask mri/brainmask.mgz --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --subject subject --surf-wm-vol --ctab $FREESURFER_HOME/WMParcStatsLUT.txt --etiv doug On 03/22/2012 12:57 PM, sam bedford wrote: > > Dear All > > > We want to find frontal lobe grey and white matter volumes in a > patient group to compare it with control group. In particular, we want > to see the grey and white matter volumes in the dorsolateral > prefrontal cortex (DLPFC). However we seem to be having problems > finding this region on the processed data for white matter volume > (after recon-all command). It was previously suggested in this mailing > list that we can get grey matter volume for the DLPFC by combining the > following volumes: > > $hemi.G_frontal_middle.label > $hemi.S_frontal_inferior.label > $hemi.S_frontal_middle.label > > We are wondering how to get white matter volumes in the same region... > > > If getting the DLPFC volume is difficult then can we just use the > frontal grey and white matter volumes to make between group > comparisons. From aseg and aparc files in the stats folder, adding all > the following values below would give us frontal white and grey matter > volumes. Or is there a simpler and less time consuming way to > calculate grey and white matter volume in the frontal lobe? > > > Frontal lobes - White Matter volume > > > caudalmiddlefrontal > > lateralorbitofrontal > > medialorbitofrontal > > paracentral > > parsopercularis > > parsorbitalis > > parstriangularis > > precentral > > rostralmiddlefrontal > > superiorfrontal > > frontalpole > > > Frontal lobes - Grey Matter volumes > > > G_and_S_frontomargin > > G_and_S_paracentral > > G_and_S_subcentral QQQ??? > > G_and_S_transv_frontopol > > G_front_inf-Opercular > > G_front_inf-Orbital > > G_front_inf-Triangul > > G_front_middle > > G_front_sup > > G_precentral > > S_front_inf > > S_front_middle > > S_front_sup > > > Thanks in advance > > > Sam > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
