The ?h.sphere.reg xyz coordinates are coordinates on the sphere. To
apply a spherical registration, a point on one spherical mesh is mapped
to the closest point on the other spherical mesh. not sure if that
answers your question ...
On 7/21/2022 5:26 PM, Salar Dini, Elaheh wrote:
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Dear freesurfer experts,
I was wondering if ?h.sphere.reg files have any coordinates in space
tagged to them? What I actually mean is I'm using TRACULA which itself
use the following files from mri and surf folder (all created by
running recon-all on T1 image): aparc+aseg.mgz, brain.mgz,
brainmask.mgz, orig.mg, T1.mgz and
ThalamicNuclei.v12.Ta.FSvoxelSpace.mgzlh.thickness,rh.thickness,lh.white,rh.white,lh.sphere.reg,rh.shere.reg.
I have all these files (except ?h.thickness and ?h.sphere.reg) in new
coordinates in space created by co-registration. The pipeline we use
to create recon-all results is almost the same as freesurfer pipeline
with a slight difference in autorecon1 step, so the final results are
almost always the same but the coordinate of the brain in 3D space is
different, so we usually end up co-register one's reconstruction
result (from our pipeline) with oneself T1.nii (come from mri_convert
T1.dcm) so the structural mri reconstruction and dwi dcm files are in
the same coordinate and can overlay. My understanding is that there is
no coordinate tagged to ?h.sphere.reg files in 3D space, rather they
are regulatory files which include some information about x,y,z
vertices in regard to the surface of a hypothetical sphere (and the
xyz are coming from the curvature of one's brain). As a result, I can
use ?h.sphere.reg files as they are without any need to make any
changes to match my files after they are coregistered. Is my
understanding correct?
I'm sorry if my language is not clear enough. I tried my best to
describe the situation, but I'm not sure if my description is clear
enough.
Thank you for your help and time.
Ela
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