Hello all Freesurfer users!
I am planning to do some cortical thickness analysis in children affected by psychiatric disorders, and after a few months of reflection, I still have some trouble to obtain a correct segmentation in the parietal region with my images.
Actually, I am especially intere
Hi Alex,
the thickness is the distance between the ?h.white and ?h.pial surfaces.
These are initialized with the wm volume, so if it is too far off, they
won't converge to the right answer. It's pretty robust, but if you're
missing 5-6mm of wm at the crown of a gyrus for example, it probably
wo
Hello,
I am having some trouble with freesurfer causing a system to hang. After
processing a subject for several hours the system becomes unresponsive and
a hard reboot is required. The system doesn't do this except when
freesurfer is running.
Here is some info on the system:
Linux 2.4.21-15.0
Hi Joe,
we need more information than this. Do you have screen output? What
process was running? Check the subject to make sure nothing is wrong with
it (e.g. cerebellum attached)
That said, I don't think I've ever seen a freesurfer-induced hard reboot.
Sounds more like something is wrong with
Bruce,
> we need more information than this. Do you have screen output? What
> process was running? Check the subject to make sure nothing is wrong with
> it (e.g. cerebellum attached)
There is no screen output, the screen goes blank. I am not running
freesurfer myself, I am just the admin for t
We find that it helps to make the calcarine cut go very far posterior,
usually requiring you to rotate the brain by about 30 degrees so you can
actually reach the occipital pole. Then for the cutting plane points we use
the anterior point of the calcarine cut, the acsending limb of the cingulate
s
$)CThanks Bruce,
but I am not sure I understand it.
Would be more specific?
Also, how would you make the cuts consistent across
different subjects' brains?
Nam.
>>> Bruce Fischl <[EMAIL PROTECTED]> 05/05/10 [EMAIL PROTECTED] 4:45 >>>
Hi Nam,
for occiptial 1/3 of cortex, Anders, Marty and Rog
So generally speaking, the thickness values obtained before and after manual
editing should be quite similar across the brain.
How smooth should the surface be before you can move on? I tend to get slight
"protrusions" here and there across the surface and it generally appears to be
smooth. Is i
