Hi all,
I am trying to extract LGI measures as prescribed in
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Hi FreeSurfer devs,
Thanks for the program! I am assisting in a study comparing structural
neuroimaging data between groups. Some of the MRI files exist as .dcm, while
others exist as .IMA. Given the variability in FreeSurfer outputs noted here:
Hi Nate
I guess it depends on how they were created. If it the ima/dicom creation
doesn't change either the direction cosines or the image data I don't think it
should be a problem.
Bruce
From: freesurfer-boun...@nmr.mgh.harvard.edu
On Behalf Of Nathan Hostetler
Sent: Wednesday, May 26,
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Hi Anastasia,
Thank you so much for your reply. I noticed the truncated temporal lobes in
the registered dti_FA.bbr, but I do not see the same problem in either the
T1.mgz or the aparc+aseg.mgz when loaded into freeview. In the subject's
native space
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Just a quick update, running `recon-all -all -s bert` inside
`freesurfer/freesurfer:7.1.1` has already made it past the stage that is
failing above on my machine.
-Paul
On Wed, May 26, 2021 at 4:24 PM Paul Wighton
wrote:
> That's very strange. The
Hi Marena - How does the T1 of this subject and its freesurfer segmentation
(aparc+aseg) look? In the image the brain looks truncated, is that the case
with the T1?
Anastasia.
From: freesurfer-boun...@nmr.mgh.harvard.edu
on behalf of Marena Manierka
Sent:
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That's very strange. The command that is failing seems to be:
```
mri_convert /usr/local/freesurfer/subjects/bert/mri/rawavg.mgz
/usr/local/freesurfer/subjects/bert/mri/orig.mgz --conform
```
But when I test running that in
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Dear FreeSurfer Team,
Hope you are doing well! I've run into an issue I hope you can help me
with. After running recon-all on my subjects, I proceeded with the thalamic
segmentation step. I'm specifically interested in extracting the
mediodorsal (MD)
