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Thanks, Daniel! The shape doesn't change too much, but I guess it is all a matter of degrees. It sounds like it might work for two brains at least, I'll give it a try. Do you think it would work iteratively, for many brains, or would the interpolation errors compound with each additional comparison?

Here is one heatmap resulting from a brain case-brain comparison. I want to register a bunch of heatmaps similar to this one together and somehow "average" the values to get an average heatmap.
Dan

I'm a biologist at Adelaide University in Australia. I've been put onto Cloud Compare by some archeologist colleagues as a way to compare the shape of two anatomical structures. In my case, I am comparing the shape of the brain of an animal with the shape of its brain case, to see where the brain ...