Hi Mike,
mris_wm_volume does what you describe. It generates a high resolution
volume of the interior of the ?h.white surface, then counts up all the
voxels internal to that that are labeled White Matter or Cortex by the
aseg (that is, we trust the surface placement more than the aseg.mgz, so if
the aseg thinks it's cortex and it's interior to the surface we include it
as white matter).
cheers,
Bruce
On Wed, 2 May 2007, Michael Harms wrote:
Hello List,
Just to clarify: I thought that the "total white matter volume"
statistic that is output as part of 'mris_anatomical_stats' is incorrect
and not to be used. Rather, I thought 'mris_wm_volume' was to be used
instead...
Also, while I'm posting on this issue, could someone please comment on
how 'mris_wm_volume' computes its value? I thought that perhaps the
output of 'mris_wm_volume' would be the same as that obtained by running
'mris_volume' on the ?h.white surface and then subtracting the volume of
(lateral ventricle + caudate + putamen + pallidum + thalamus-proper)
(obtained from the aseg), but the numbers don't match, and the
relatively long processing time of 'mris_wm_volume' relative to
'mris_volume' suggests to me that something more complex is going on.
thanks,
Mike Harms
On Tue, 2007-05-01 at 10:04 -0400, Bruce Fischl wrote:
On Tue, 1 May 2007, deepa preeti wrote:
Hi all,
I am a Freesurfer beginner and trying to do cortical surface analysis.
I wanted to have whitematter, gray volume and avg.thickness for each
hemisphere. So when I run
mris_anatomical_stats -t thickness <subject> lh
I get the following data:
total white matter volume = 729800 mm^3
total surface area = 90850 mm^2
total gray matter volume = 181205 mm^3
average cortical thickness = 1.971 mm +- 0.739 mm
average integrated rectified mean curvature = 0.129
average integrated rectified Gaussian curvature = 0.039
folding index = 1574.464
intrinsic curvature index = 204.376
Please correct me if I have this wrong.
total whitematter volume ---> is of the total brain
this is the volume of the cerebral white matter
total surface area ---------> what does it represent ?
the surface area of whatever surface you specified (default is lh.white)
cheers,
Bruce
I am bit confused here.
Thanks,
Deepa Ramasamy.
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