I think that will work, but there are better tools for this kind of
thing. If you have 7.4, you can use mri_binarize, like
mri_binarize -dilate-vertex vno surf radius outmask
where vno is the center vertex, surf is the surface (eg, white), radius
is the desired radius of the cicrle, and outmask is the output binary
mask (eg, lh.yourcircle.mgz)
On 12/13/2023 5:25 PM, Na, Xiaoxu wrote:
External Email - Use Caution
Dear Freesurfer Expert,
We would like to extract mean Cth values for each subject within a
own-creaded ROI (surface defined), using freeview (for instance). Is
it possible to create a ROI (i.e. spherical surface) surrounding a
particular vertex of an sig.mgh file? (and then extract its mean Cth
values for each subject)?
I think this is not a new question, and it was posted somehow on
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but I’m still encountering questions.
These commands did run, but together they didn’t create a binarized
mask with 1 for the sphere around the coordinates, and 0 for the other
voxels. Would you recommend what I should change? Thank you so much!
$mri_volsynth --template $SUBJECTS_DIR/fsaverage/surf/lh.thickness
--pdf sphere --sphere-center -7.4 67.22 60.27 --radius 5 --o
delta.sm00.mgh
$mris_fwhm \
--smooth-only \
--subject fsaverage \
--hemi lh \
--i delta.sm00.mgh \
--niters 10 \
--o delta.sm10.mgh
$mri_binarize --i delta.sm10.mgh --min 10e-5 --o delta.sm10.bin.mgh
Regards,
Xiaoxu
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