Hi Chris,

Thank you for clarifying the origin issue. I have attached the cropped NIfTI image for the same case. For your information, to preserve the original properties (size, origin, space) of the image, I simply set all slices below the neck to the background.

Regarding your earlier comment on the mask, "2. Two masks are defined in the template space. One prioritizes the face region in the registration cost function and includes the whole head." Could you please clarify if the term "mask" refers to a de-identification mask? My understanding is that after the template is warped to the input image, a de-identification mask will specify the areas to be replaced, including the face, ears, and area behind the head. Does this mean that MRI_face will generate two distinct de-identification masks?

Best,
Du