Are you asking if that is a topological defect? It is impossible to say
from one slice. The surface itself is ok to be there as that is on the
medial well.
On 8/30/2021 8:53 PM, halil ibrahim AKÇAY wrote:
External Email - Use Caution
Hi
My name is Halil Ibrahim akçay. I am a
can you send the recon-all.log file?
On 8/30/2021 3:54 AM, 朱子家 wrote:
> External Email - Use Caution
>
> Hello FreeSurfer Developers,
>
> when I run the recon-all command:
>
> $ export SUBJECTS_DIR=`pwd`
> $ cd /lustre/home/acct/zjzhu/project/zzu_MRI/T1/test
> $ ls *nii | parallel --jobs
Not sure what you are trying to do. Usually we do not do voxel-wise
analysis on the asegs (eg, like with a vbm)
On 8/29/2021 2:52 PM, guang wrote:
External Email - Use Caution
At 2021-08-05 08:44:11, "guang" wrote:
Hello FreeSurfer Developers,
I'm trying to analyze
External Email - Use Caution
Hello,
I would like to run a correlation analysis but limit the analysis area to
three of the seven networks of the Yeo 2011 network parcellations. Would
this be possible? Would I do it via a --mask option in mri_glmfit?
Thank you,
Haley
External Email - Use Caution
Hi Sara,
It is a bit difficult to tell what exactly is the cause of the problem, but as
a potential solution, you might try to exclude the vertices from further
analysis by excluding them from the analysis mask (e.g., ‚lhcortex' variable).
To
External Email - Use Caution
Hi Achille,
It sounds like the initial affine registration of the template in SAMSEG is
failing for some of your subjects. If that is the case, you will see that
"template_coregistered.nii" is probably not aligned with your original data.
As the
External Email - Use Caution
Is it true that all that is needed for a new official FS docker container
to come into existence is to merge pull request #866
External Email - Use Caution
Hi y,all,
I know that freesurfer is not made to work with MRI scans that are cut off.
However, this is the only imaging we have, and we would love to have
freesurfer data to analyze from this patient. The posterior third of the
scan is missing, so it
External Email - Use Caution
Thx Doug, much appreciated.
Jim
From: freesurfer-boun...@nmr.mgh.harvard.edu
On Behalf Of Douglas N. Greve
Sent: Tuesday, August 31, 2021 12:00 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] WM or Pial edits to correct surfaces
*
Hi Jim, I know it has been a while, but I have tracked down the source
of the problem with the pial surface. I can go into detail if you want,
but the fix is to add -no-numakeuchar to recon-all. I noticed that there
are some places where the white surface does not extend far enough. This
is
That is not an annotation file. Try the one with .annot suffix.
Ruopeng
On Aug 31, 2021, at 12:07 PM, Haley Park
mailto:hpar...@gmail.com>> wrote:
External Email - Use Caution
Thank you!
When I tried that I get a series of error messages like this:
MRISreadAnnotationIntoArray:
External Email - Use Caution
Thank you!
When I tried that I get a series of error messages like this:
MRISreadAnnotationIntoArray: vertex index out of range: 1948771661
i=0003746D, in_array_size=163842
annot file:
You can load them as annotations in freeview along with your overlay. Change
the z-order of the overlay to be larger than the annotation so that the overlay
will be displayed on top of the annotation.
Ruopeng
On Aug 31, 2021, at 10:16 AM, Haley Park
mailto:hpar...@gmail.com>> wrote:
External Email - Use Caution
Hello,
I did a correlation analysis and see the significant areas in freeview when
I run
freeview -f
$SUBJECTS_DIR/fsaverage/surf/lh.inflated:overlay=cache.th20.abs.sig.cluster.mgh
However, I would like to see whether the significant areas are a
External Email - Use Caution
Dear experts,
We are working with a large MRI dataset (FLAIR, T1) and we are performing
SAMSEG pipeline to estimate lesion volumes. We computed the registration
between the two input images and the resampling as advised in the SAMSEG page
External Email - Use Caution
Hello Experts,
I am planning to run the longitudinal processing pipeline (Freesurfer
version 7.1.1). But I have a few subjects who were scanned on different
scanner field strengths at baseline and followup.
For example :
Baseline was scanned on a
16 matches
Mail list logo
