I have included a script to export these values to a spreadsheet
http://surfer.nmr.mgh.harvard.edu/fswiki/UserContributions/Scripts/ppaulo/excelICV-aseg
2008/9/4 Bruce Fischl <[EMAIL PROTECTED]>
> p.s. we probably do something similar to the "loose-fitting mask" as we
> only use non-brain locatio
p.s. we probably do something similar to the "loose-fitting mask" as we
only use non-brain locations that are reasonably close to brain (within 2
cm or so)
On Thu, 4 Sep 2008, Michael Harms wrote:
It certainly is my read of the Buckner 2004 paper that they used skull-
stripped brains in their
only because we had a different set of manually-generated ICV datasets and
a different registration algorithm (the one used by the aseg)
On Thu, 4 Sep 2008, Michael Harms wrote:
It certainly is my read of the Buckner 2004 paper that they used skull-
stripped brains in their registration.
Fr
It certainly is my read of the Buckner 2004 paper that they used skull-
stripped brains in their registration.
>From the last paragraph of page 724:
"Registration was driven by the brain as a loose-fitting mask was
applied to exclude skull and extracranial features."
What was the original motiva
Hi Mike,
the alignment whole head is used to determine the atlas scaling factor,
which itself was computed using some manually generated ICV values. Did
Randy use skull-stripped brains? I didn't remember that and would have
thought that defeated the purpose since you'll strip the sulcal CSF as
Now I've become confused.
ICV is based on the determinant of talaiarach_with_skull.lta, for which
the skull is not stripped. So, I've always assumed that basically
everything -- wm, gm, csf, cerebellum, dura, AND skull tissue -- all
"contribute" to the definition of the transform (using whatever
yes, that's correct.
Bruce
On Wed, 3 Sep 2008, Jeff Sadino wrote:
Hello,
I am measuring the shrinkage of the limbic system over time for several
subjects and need to know what is included in the ICV value in aseg.stats to do
this. We are putting our raw scans into freesurfer without any ma
Hello,
I am measuring the shrinkage of the limbic system over time for several
subjects and need to know what is included in the ICV value in aseg.stats to do
this. We are putting our raw scans into freesurfer without any manual edits
until after QA at the end. My understanding is that the b
