Thank you, it works very well, and at a glance seems actually a lot more
precise than aseg.mgz, especially with the cerebellum :)
Hope it will be implemented in some shape or form to recon-all
Victor Zeng
Beth Israel Deaconess Medical Center
Keshavan Lab
--
_
yes
On 2/25/20 2:05 AM, Devika K wrote:
>
> External Email - Use Caution
>
> Hi,
>
> Can I use the below command to extract the cortical thickness using
> Destrieux Atlas from longitudinally preprocessed subjects?
> aparcstats2table --hemi lh \
>--subjects 004 021 040 067 080 092 \
>
Don't use the T1.mgz (that has been heavily processed by recon-all). Use
the orig.mgz instead
On 2/25/20 8:44 PM, Zeng, Victor (BIDMC - Keshavan - Psychiatry) wrote:
>
> Hi Freesurfer team,
>
>
> I've run samseg for one participant, using the /mri/T1.mgz as the
> input, but the output seg.mgz is
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Dear Freesurfer users,
The laboratory of Dr. Emily Finn in the Department of Psychological and Brain
Sciences at Dartmouth College is seeking a full-time Research Assistant for a
targeted start date of July 2020. The research of the lab focuses on in
Hi Dylan
I think you could probably do a recon without topology fixing although of
course the spherical mapping will then be multi-valued. It will take a bit
of hacking at recon-all to get it to work though as it is not a use-case
that we explicitly support.
cheers
Bruce
On Thu, 27 Feb 2020
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Dear Freesurfers,
I am attempting to run the full reconstruction in Freesurfer on several hundred
patient images with diseased areas of the brain.
Without skipping any steps of the analysis chain, I am able to complete the
full reconstruction for a
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Dear Freesurfeer experts,
After running the recon-all, a part of the temporal lobe of one subject was
removed.
I used the watershed algorithm to be less agressive in the skull stripping
step:
recon-all -skullstrip -wsthresh 35 -clean-bm -no-wsgcaatl
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Dear mailing list,
I was trying to convert a volume image to a freesurfer surface (as
gii) with `mri_vol2surf` for visualization, but ended up with invalid
surface data (i.e., a file not loadable by freeview).
What I did was:
---
% mri_vol2surf --ver
