Problem with surfaces vs volumes

[Francois]

@rjjj8

So that's great that I have a spectrum that corresponds! It is returning 90x3 = 270 values - Is there a method in Brainstorm where I can get a coherence measure that is the maximum i.e. just 90 scouts? I tried to add the coherence results to the pipeline but I couldn't see how I could reduce it to just 90 scouts.

I'm not sure what you refer to... The NxN coherence with the options configured as mentioned before, you should obtain one value per pair of scouts. Try with simply two scouts to understand what is going on.
If you think you are not getting what you should, please post a screen capture where you see this "3x90" values.

@rjjj8

I would rather use Surfaces because they are clearly easier to interpret, but I was under the impression that they weren't valid for deep structures - is this right? If I can use surfaces, I would prefer it if it is OK.

Indeed, the atlas of deep structures use only fully unconstrained source models.
See this tutorial for more information: http://neuroimage.usc.edu/brainstorm/Tutorials/DeepAtlas

@rjjj8

A question is: how does this analysis compare to the CARTOOL software Volume analysis - is it the same?

I don't know what Cartool does or not, you'd have to ask Denis Brunet.