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Dear James and FreeSurfer experts, for lobes average cortical thickness we use this solution https://secure-web.cisco.com/12kn5RGwkDP8VJQa9PtCWSWT_3GfJlJYy06k6EpiyBm3DNk..., hope it helps!
Best, Fernanda
Fernanda Hansen P. de Moraes fernandahmoraes@gmail.com Doutora em Ciências Médicas | metaBIO (IF-UFRJ) e Instituto D'Or de Pesquisa e Ensino
On Wed, Nov 9, 2022 at 11:35 AM Douglas N. Greve dgreve@mgh.harvard.edu wrote:
I would weight by the number of vertices in each ROI
On 11/8/2022 12:20 PM, James Brown wrote:
External Email - Use CautionDear Freesurfer experts, I would like to know if this procedure is correct. I have cortical thickness data from aparc+aseg for every ROI in DTK atlas (i.e. output of recon-all). I need average cortical thickness in frontal, parietal, temporal, cingulate and occipital lobes. Is it correct to average thickness measurement of every sub lobe roi (e.g. average thickness in frontal lobe = average of:
- Superior Frontal
- Rostral and Caudal Middle Frontal
- Pars Opercularis, Pars Triangularis, and Pars Orbitalis
- Lateral and Medial Orbitofrontal
- Precentral
- Paracentral
- Frontal Pole
and so on for other lobes...
Do we need to correct for the number of vertices in every region when we measure the lobar average thickness?
Alternatively, do I need to run these commands to generate lobes then measure thickness in every lobe?
# mri_annotation2label --subject subject --hemi lh --lobesStrict lobes # mri_annotation2label --subject subject --hemi rh --lobesStrict lobes # mri_aparc2aseg --s subject --labelwm --hypo-as-wm --rip-unknown \ # --volmask --o wmparc.lobes.mgz --ctxseg aparc+aseg.mgz \ # --annot lobes --base-offset 200 [--base-offset must be last arg]
Thank you James
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