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Hi FS experts,
I am interested in displaying my ROI: ROI.nii (which is in standard space: avg152T1.nii.gz) on to fsaverage space. For that, I performed following steps:
(1). Registered my template to fsaverage and saved the transformation matrix TT.dat as following:
fslregister --s fsaverage --mov ROIs/avg152T1.nii.gz --reg TT.dat
(2). Mapped my ROI to fsaverage using the transformation matrix TT.dat as following:
mri_vol2surf --mov ROIs/ROI.nii --reg TT.dat --projdist-max 0 1 0.1 --interp nearest --hemi lh --out ROIs/ROI_Trans.mgh
This works for 12 out of my 14 ROIs, but two of the ROIs are not displaying properly, and after the transformation when I displayed those on fsaverage space, these ROIs cover the whole hemisphere (please see attached: e.g. overlaying an ROI_Trans on fsvaerage space).
I confirmed that both of these (non-working) ROIs (in .nii form) look fine on avg152T1.nii.gz, and on fsaverage when applying the transformation as following:
tkmedit fsaverage T1.mgz -overlay ROIs/ROI.nii -overlay-reg TT.dat -fthresh 0.5 -surface lh.white -aux-surface lh.white
I would really appreciate any help.
Thanks.
