Hi Gwang-Won

try mri_mask

cheers Bruce On Fri, 6 Sep 2019, Gwang-Won Kim wrote:

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Hi there,   I would like to show activation map in the thalamus, caudate nucleus, and hippocampus.   activation.mgh : activation map in the subcortical areas mask.mgh: including the thalamus, caudate nucleus, and hippocampus   How do I make the activation map in the thalamus, caudate nucleus, and hippocampus? Do I use "mri_binarize" or "mri_convert"? mri_binarize  --i activation.mgh --mask mask.mgh --0 result.mgh   Best wishes Gwang-Won Kim    [?usn=6394937&email=kw0212@nate.com&key=891ffbba089c0540d4366f2252351e16$64c b44f5@mail3.nate.com]