Hi Yoon - The wmparc and aseg ROIs are in the subject's native T1 space, so you don't need to register across subjects to get ROI-based diffusion measures. You just need to register between the subject's own T1 and DWIs - the recommended method for that is bbregister. You can find more in the multimodal tutorial on the freesurfer wiki.
Best, a.y
On Tue, 23 Aug 2016, Chung, Yoonho wrote:
Hi Anastasia,
Is there a preferable method between CVS vs MNI registration when extracting diffusion mesures from ROIs (white matter, ASEG etc)?
Best,
Yoon