Dear all,
I am trying to measure local Gyrification Index in my subjects and can't
get started. I get the following error:
Flag -localGI not recognised
I have Matlab and its Image processing toolbox installed in my computer
and am running freesurfer version 4.0.2. Do I have to have the
Hi all,
I would like to add fieldsigns across multiple retinotopy sessions in the
same subject, in order to get a metric of the reliability of the mapping.
However, when I tried to do this in one subject, I found that fieldsigns
from two sessions largely canceled one another out. This led to a
di
Hi Wayne,
yes, the problem is that the surfaces are including some non-cortical
regions, which makes the topology dramatically wrong, so the topology
fixer takes forever. To fix it you have to figure out why they are
connected and remove the correction (possibly by erasing voxels in the
wm.mg
I closely looked at the two scans having unexpected long processing time.
Both them the ribbon.mgz covered not only brain but also outside the brain.
One scan the lh.ribbon.mgz only covered a little bit of the cortex area. Is
there any way to fix this issue?
Thanks.
Wayne
On 05/05/09 9:48 AM, "
Hi Freesurfer folks-
I created a custom aseg atlas and now, I am running into some issues
w/ recon-all. Here is part of my terminal output...
---
cp aseg.auto.mgz aseg.mgz
#--
#...@# CC Seg Wed May 6 20:40:19 CDT 2009
mri_cc -aseg aseg.auto.mgz -o aseg.aut
it is classified as GM in the aseg, or does the pial surface include it?
If the former then it doesn't really matter, but if the pial grabs it you
need to edit it.
cheers,
Bruce
On Thu, 7 May 2009, Drosos,
Athena wrote:
Hi Sita,
Thank you for your response. Our problem is that skull is b
Hi Sita,
Thank you for your response. Our problem is that skull is being classified as
grey matter, which affects our cortical thickness measures. We ended up doing
manual edits to the brainmask volume for our subjects and rerunning autorecon2
with the wm flag. This has worked on some subjects
Hi,
I have a problem:
In the past Freesurfer runs and all go right.
Now when I run tksurfer command, a error message appears:
surfer: current subjects dir: models/buckner_data/tutorial_
subjs/group_analysis_tutorial/
surfer: not in "scripts" dir ==> using cwd for session root
surfer: session root
