Name

mri_label_volume - get various volume stats

Synopsis

mri_label_volume [options] <volume> <label 1> <label 2> ...

volume	the .mgz file, eg. aseg.mgz
label 1	the label number, eg. 17 (left hippocampus)
label 2	another label number, eg. 53 (right hippocampus)
...	more label numbers

-pv <fname>	compute partial volume effects using intensity volume <fname>
-icv <fname>	normalize by the intracranial volume in <fname>
-s <subject>	output in spreadsheet mode, including <subject> name in file
-a	compute volume of all non-zero voxels (e.g. for computing brain volume)
-t <in> <out>	replace label <in> with label <out>. Useful for compute e.g. whole hippo vol
-b <brain vol>	compute the brain volume from <brain vol> and normalize by it
-p	compute volume as a % of all non-zero labels
-l <fname>	log results to <fname>
-atlas_icv <fname> <scalefactor>	specify LTA or XFM atlas transform file and scale factor to use for ICV correction (c.f. Buckner et al. 2004)
-eTIV <fname> <scalefactor>	same as -atlas_icv
-eTIV_matdat <fname> <scalefactor> <subject>	same as -eTIV, and generate matlab data appending <subject> to structure

set sdir=$SUBJECTS_DIR/subjid/mri
mri_label_volume -eTIV \
 $sdir/transforms/talairach.xfm 1948 \
 $sdir/aseg.mgz 17 53