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Which annot files are you comparing? Some of them (eg, aparc) have an
extra procedure where the labels boundaries are fine-tuned, so that
could cause the difference. Your command looks right.
On 8/30/2023 1:28 PM, Leonardo Cardoso Saraiva wrote:
External Email - Use Caution
Dear Freesurfer Experts,
I would like to follow up on my last email and ask if you had a chance
to take a look at it.
Any guidance or feedback would be greatly appreciated!
Thank you for your time!
Best,
Leo
Em dom., 20 de ago. de 2023 às 23:41, Leonardo Cardoso Saraiva
<leonardo.sara...@usp.br> escreveu:
Dear Freesurfer Experts,
I am using .annot files to extract parcellated vertex-wise
morphometric features from surf files (e.g., area value from
?h.area file). For each vertex, I want to determine the parcel it
belongs to and its associated morphometric features. During this
process, I exclude vertices labeled as ‘unknown’ or ‘medial wall’.
In addition to the aparc parcellation, I am also using other
parcellations computed on fsaverage. Therefore, I need to resample
these parcellations onto native surfaces. To do this, I am using
commands such as the one below:
mri_surf2surf --srcsubject fsaverage \
--sval-annot ${SUBJECTS_DIR}/fsaverage/label/lh.test\
--trgsubject sub-test \
--trgsurfval ${SUBJECTS_DIR}/sub-test/label/lh.test \
--hemi lh
As a sanity check, I used the above command to resample the aparc
parcellation onto native surfaces (which is already done by
recon-all). However, when I use the .annot files generated by the
above command to extract morphometric features from surf files, I
get a different number of vertices than when I use the .annot
files generated by recon-all. Is this behavior expected? Am I
doing something wrong?
Thank you for your time and attention.
Best,
Leo
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