External Email - Use Caution
Is SUBJECTS_DIR for Freesurfer being set to live under a temporary
scratch directory initially created by and then subsequently used by Matlab?
If so, maybe Freesurfer is deleting files and/or changing file permissions
there - causing Matlab to
External Email - Use Caution
I would check with your IT support staff about the error including asking
if the machines in your cluster are setup to display X Windows sessions with
image viewing applications like Freeview. If the machines support
remote graphics, they should be
External Email - Use Caution
Hello,
I am trying to run the recon -all function in my MATLAB pipeline using
Freesurfer 6.0.0 and I have no issues with it. However, when I run the
recon -all step using Freesurfer 7.2.0 and run the following command (the
recon -all step finishes
Do you acquire any other scans, like an mprage, in the same session? If so, the
easiest thing to do would be to push that through our recon-all pipeline, then
register your MPF images to either the mprage or to surfaces using bbregister
and you can transfer whatever parcellations/segmentations
Dear Francesca,
Our method cannot reliably segment these thin/faint structures from clinical
scans of arbitrary resolution and contrast, which is why they don’t get
segmented.
If you want to segment the choroid plexus, you could take then intensities
under the ventricles and split them into
External Email - Use Caution
Thanks a lot Lilla.
On Tue, Jan 9, 2024, 3:45 AM Zollei, Lilla,Ph.D.
wrote:
> Hi Amrita,
>
> The download link has been sent to you.
>
> The thalamus does get segmented with infantFS and the LUT is the same as
> for the adult recon. I would process
External Email - Use Caution
Hi there Freesurfer,
I am currently using freesurfer to take DTI metrics (FA, MD) from
hippocampal subfields.
At this point of my exploration with freesurfer, I am able to correctly
register the hippocampal subfields and diffusion data, and obtain my
Hi Anna
Parcellation is more than just format conversion - you need to map it onto the
details of an individual subject's anatomy. In addition, the DKT atlas is only
cortical. If you want subcortical regions in addition you should run recon-all
as it will produce both.
Cheers
Bruce
From:
Dear Hengameh,
Synthesis of T2 and FLAIR images is on the to-do list, and should happen in the
next couple of months
Cheers,
/Eugenio
--
Juan Eugenio Iglesias
http://www.jeiglesias.com
From: freesurfer-boun...@nmr.mgh.harvard.edu
on behalf of hmarz...@student.ubc.ca
Date: Thursday,
External Email - Use Caution
Dear Lilla,
I posted a similar question some week ago, I quote it here again, I would be
grateful if you could provide feedback.
Regards,
Mic
From: Michelangelo Fabbrizzi mailto:michef...@gmail.com>>
Date: Wednesday, October 11, 2023 at 11:48 AM
External Email - Use Caution
Your e-mail is wrong.
回复的原邮件
| 发件人 | Zollei, Lilla,Ph.D. |
| 日期 | 2024年01月09日 16:45 |
| 收件人 | fsbuild、Freesurfer support
list |
| 抄送至 | |
| 主题 | Re: [Freesurfer] Infant fs |
Hi Amrita,
The download link has been sent to you.
The
External Email - Use Caution
Sorry, your e-mail is so much, I don't want to receive your emails anymore,
please don't send them again. Thanks
Replied Message
| From | Huang, Yujing |
| Date | 01/09/2024 05:10 |
| To | Freesurfer support list |
| Cc | |
| Subject |
External Email - Use Caution
Dear Freesurfer Experts,
I am interested in generating a volumetric segmentation and parcellation of the
HCP-MMP1 atlas using mri_surf2volseg - and I have previously done this like so:
mri_surf2volseg --o $sub/HCP-MMP1_fsSpace.mgz \
Hi Amrita,
The download link has been sent to you.
The thalamus does get segmented with infantFS and the LUT is the same as for
the adult recon. I would process the 11 year old data with the adult pipeline.
Lilla
From: freesurfer-boun...@nmr.mgh.harvard.edu
14 matches
Mail list logo
