Dear FreeSurfers,
I'm facing a problem with the estimation of local gyrification index. I've
already performed the analysis with QDEC and the insertion of the MEASURE1
= pial_lgi line in the .Qdecrc file, but I'd like to see if it is possible
to use the *aparcstats2table *command in order to have
Hi Roberta
we compute but do not apply the talairach transform, so all the volumes,
surfaces, ROIs are in subject space, not talairach.
cheers
Bruce
On Mon, 13 Oct 2014,
Roberta Santoro wrote:
Dear list,
I am new to Freesurfer and I have a doubt about the Talairach
transformation. As
Dear list,
I am new to Freesurfer and I have a doubt about the Talairach transformation.
As far I understand, the Talairach transformation is applied to compute the
surface representations. However, this seems to be a “hidden“ step, i.e. no
volume is saved as Talairach transformed. Is this
Dear FreeSurfer export,
I have used the longitudinal stream in FreeSurfer. However, when I
extracted the ICV for adolescents and young adult, I get the same number
for those subjects that are present at two-time points. Will
registration to a common space cause the change in ICV? Can this
Dear freesurfer experts,
I am trying to run tracula but it fails on mri conversion of the data, it
creates the nifty files from dicoms, but fails to produce bvec file where
the problem could be?
The terminal info as well as configuration file used for preprocessing is
attached.
Looking forward to
Thank you for your help!
So you are suggesting that after we insert the patch we run -autorecon2
-autorecon3 -clean-aseg on all of the subjects who were previously run with
the -nocanorm flag? How will this affect the edits previously made on them?
Thank you,
Gabe
-Original Message-
Hi Bruce,
Sure, shall try to do that comparison and see if it works. Also would
specifying image intensity in the expert option help in any case.
Thanks,
Sneha
From: freesurfer-boun...@nmr.mgh.harvard.edu
[freesurfer-boun...@nmr.mgh.harvard.edu] on
Hi Bruce,
I'm chiming in because I've been having a similar issue with the method you
mention above. Though, my goal is just to move the surface rendering into
the subject's native space using tkregister2 and mri_surf2surf as suggested
here:
Hi Anderson,
Thank you for your paper. I guess I am confused. I have analyzed my
structural data with qdec, specifically looking at a measure of cortical
thickness and volume. I'm considering looking at surface area as well but
was told it wasn't a very good measure using qdec, I have no other
Hi Zack
there is a ras2vox transform in the surface file header that I believe
freeview uses. I'll cc Ruopeng so he can confirm and give you details
cheers
Bruce
On
Mon, 13 Oct 2014, Zachary Greenberg wrote:
Hi Bruce,
I'm chiming in because I've been having a similar issue with the method
Hi Kate
can you run:
cd /home/fsuser/host/Sprachlernen/Subjects/Y03/mri
mri_nu_correct.mni --n 1 --proto-iters 1000 --distance 50 --no-rescale --i
orig.mgz --o orig_nu.mgz
and send us the full screen output?
thanks
Bruce
On Tue, 14 Oct 2014, Kate
Riggall wrote:
Hello,
I am using
Hi Bruce,
The output is as follows:
fsuser@xubuntu-VirtualBox:~$ cd
/home/fsuser/host/Sprachlernen/Subjects/Y03/mri
fsuser@xubuntu-VirtualBox:~/host/Sprachlernen/Subjects/Y03/mri$
mri_nu_correct.mni --n 1 --proto-iters 1000 --distance 50 --no-rescale --i
orig.mgz --o orig_nu.mgz
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