afni.nimh.nih.gov

Hi Izh,

Those numbers look okay to me, though maybe the
correlation (a recent addition) is more intuitive
to use.

Note that the anat mask can be bigger based on
coverage, especially in the inferior direction.
But the EPI mask can be bigger because it is
slightly dilated.

So it is rare that the masks align really well.
The overlap or correlation values are just to flag
something that might be grossly wrong. It is much
more important to review the anat/EPI alignment
yourself.

- rick