Hello, Group,
We calculate the globe mean of thickness by using
mris_convert -c lh.thickness lh.white lh.thickness.asc
mris_convert -c rh.thickness rh.white rh.thickness.asc
and then
merge two .asc files to calculate the average
Does this procedure include the neo
Hi Xin,
you can use mris_anatomical_stats with -l ?h.cortex.label, which should
be generated automatically, to avoid noncortical regions.
cheers,
Bruce
On Wed, 19 Dec
2007, Wang, Xin wrote:
Hello, Group,
We calculate the globe mean of thickness by using
mris_convert -c lh.thickne
Thank you very much very for your quickly reply, Dr. Fischl.
The commend you suggested only calculates the average for each hemisphere, but
we need the average across both hemispheres (i.e., whole brain).
Could you suggest how to do it without noncortical regions?
Thank you,
Xin
you can easily combine them as the label files have the number of
vertices in each cortex, so generating a weighted average (which will be
pretty close to equal weighting) should be straightforward.
cheers,
Bruce
p.s. one of the first lines of the label files tells you how many vertices
are i
Hello,
I have a couple of questions, not so technical.
A)In your opinion what would be the best measure for comparing number of
neurons among subjects: Average cortical thickness or Volume of White matter.
B) Automatic parcelation and atlas based segmentation is a valid
approach for
I just updated this page to include instructions on how to do this
https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/FslGroupFeat
Nick Schmansky wrote:
Gui,
Have you had a look at the tutorial page that describes the
FSL/Freesurfer integration?
https://surfer.nmr.mgh.harvard.edu/fswiki/F
Hi Pedro:
A) Who knows? Probably gray matter volume, but # of neurons is pretty far
from what we measure and many things can change volume without changing #
of neurons (e.g. degree of arborization), so it's really hard to say.
B) Depends on how severe the malformations are. For mild ones, ye
Hi Freesurfers,
Happy Holidays! I have a subject failing at Intensity Normalization, and
upon checking the talairach, I found that it is very bad. When loaded in
tkregister2, the talairach is off the screen, and the orientation is
off--coronal is matched to saggital).
According to the wiki i
Hi,
I believe this is repairable with some shifting in tkregister2, after all.
I will contact again if this doesn't work, but no need to reply for now.
Thank you!
Caroline
On Wed, 19 Dec 2007, Caroline Chapman wrote:
Hi Freesurfers,
Happy Holidays! I have a subject failing at Intensity Nor
Sorry for the stupid questions, I promise to put it on the FAQ after the
answers:
1) Is it possible to use Octave instead Matlab for curv files?
2) Given a Talairach coordinate how can I get the thickness value in
Matlab?
Thanks in advance
Pedro Paulo Jr
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