That is a file with the overlay info at each vertex. It looks like a
volume file because it is an mgz file, but that will have as many data
elements as there are surface vertices. Each element will have the value
of the overlay volume at the location of the surface vertex.
On 12/17/2024 11:53
Use mris_info, eg
mris_info --vx 1000 lh.white
vertexno 1000
xyz -21.1794 -74.9562 37.7794
nxyz 0.9807 0.1533 -0.1214
vertex_area 0.661364
neighbors 6 6
nbr 0 748 0.7216 0.5103 1944 0.2824
nbr 1 102418 0.9059 0.5654 1945 0.2912
nbr 2 991 0.7688 0.4739 2578 0.3172
nbr 3 992 0.9298
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Hi Freesurfer users
I search the FS documents but can't find a way to extract the vertex
neighborhood for a particular vertex. I'd like to use data associated with the
vertices in the neighborhood. In 3D space, we often use such kernels for
filterin
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The amygdala nuclei labels from segmentHA_T1.sh seem to behave differently in
standard freesurfer registration commands than other labels from
aparc+aseg.mgz: I can't get the amygdala nuclei to register to my functional
space correctly despite no is
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Hi,
Thank you for your response. I apologize if this is a basic question, as I am
new to FreeSurfer. Could you please elaborate on what overlay.lh.mgz refers to?
Shraddha
From: freesurfer-boun...@nmr.mgh.harvard.edu
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Hello,
I am attempting to run hippocampal segmentation with freesurfer 7.3.1, using
the segmentHA_T2.sh script with a high-resolution hippocampus T2 sequence as
additional scan input. The code runs fine, but oddly it places the outputs into
the mri
The `--inmgzwarp` flag likely didn't make it into the 7.4.1 release in June
2023, as the commit adding it was made in July 2023:
https://github.com/freesurfer/freesurfer/commit/2014205c296dca5a1a2715b6b9b6d73fc553a514.
You are correct that SynthMorph warps are both in MGZWARP format and RAS
disp
