Please ignore my second question. It looks correct in your original email. I
must mess up when doing cut and paste.
From: Huang, Yujing
Sent: Wednesday, February 22, 2023 9:55 AM
To: Freesurfer support list
Subject: RE: [Freesurfer] How to calculate the mean FA value in the hippocampus
Hi Lin,
Hi Lin,
I’m not sure why the results are different.
The input/output volumes for mri_binarize can be either mgz or nii.gz. With
your first method, can you try to convert aparc+aseg_diffspace.nii.gz to
left_hippocampus.nii.gz directly?
Also your second to last command ‘mri_convert
External Email - Use Caution
Hi Yujing,
Thank you very much for your help.
It seems to solve my problem. I can obtain the mean FA value in the left
hippocampus.
But I found another issue on the order of processing data.
# order 1: I first aligned the aparc+aseg.mgz to the
Hi Lin,
You can try mri_binarize to obtain the mask -
https://surfer.nmr.mgh.harvard.edu/fswiki/mri_binarize
FreeSurferColorLUT.txt in your Freesurfer install directory will give you a
complete list of aparc/aseg labels.
Best,
Yujing
From: freesurfer-boun...@nmr.mgh.harvard.edu
On Behalf
