I don't think we have anything that can do this easily, but it would not be too hard to use matlab, eg,

m = MRIread('aseg.mgz'); m.vol = (m.vol == 18 | m.vol == 54); % 18 and 54 are for amygdala MRIwrite(m,'amygdala.mgz');

Then in tkmedit, specify amygdala.mgz as the aux volume. Then View->MaskFunctionalWithAux (or something like that) should do the trick.

doug

trinity@nmr.mgh.harvard.edu wrote:

Hi -

I'm trying to make a picture for a manuscript submission. We'd like to show group amygdala activation on a volume but we'd only like to show the amygdala activation and mask all the other activation out of the picture. How do we do this?

Thank you.

Trinity

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