[RESOLVED] Co-registered anatomical images


I would like to access the co-registered T1w and T2w images after applying the 6 DOF rigid body transformation in the pre-freesurfer step. Could you point me to the specific filename and subfolder where I can find the co-registered images?


Hi Sara,

I ran this by the HCP folks and they said that the T1w and T2w files (which have brain masked and bias corrected versions) in the T1w/ folder are rigidly co-aligned after scanner distortion correction, though they also happen to be acpc aligned, which is the only rigidly aligned space they release. This is the refined alignment after freesurfer, though. Not sure why you specifically mentioned the PreFS alignment.

Best, Jure