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Hello FreeSurfer experts,
I'm attempting to obtain volume values for the ROIs, each corresponding to a specific network based on Yeo's 17 Network atlas.
Here are the steps I've done so far:
1. Transform from fsaverage to subject's surface (LH, RH) mri_surf2surf --srcsubject fsaverage5 --trgsubject sdas/sub052 --hemi lh --sval-annot 1000subjects_reference/Yeo_JNeurophysiol11_SplitLabels/fsaverage5/label/lh.Yeo2011_17Networks_N1000.annot --tval $SUBJECTS_DIR/sub052/label/lh.Yeo_17Network_native.annot
2. Transform from subject's surface into my subject's volume mri_aparc2aseg --s sub052 --o $SUBJECTS_DIR/sub052/mri/Yeo17.mgz --annot Yeo_17Network_native --annot-table Downloads/1000subjects_reference/Yeo_JNeurophysiol11_SplitLabels/MNI152/17Networks_ColorLUT_freeview.txt
Upon inspecting the output file (Yeo17.mgz) overlaid with 17Networks_ColorLUT_freeview.txt before extracting the volume values, I observed that the actual ROI doesn't match the label. ex) The label indicates "DefaultB_IPL" when I point the caudate nucleus
Is there something I might be missing?
And would you let me know how to extract the volumes of the ROIs for each of the 17 Networks? So I would be getting volumes for 114 ROIs in total.
I would greatly appreciate your help.
Jihye
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