Hi Doug,

Thank you, I think that will work. Right now my anatomical ROIs are in subject native space and I would like to register the third-level group (across subject) fmri activation map to subject native space as well before crossing the two. Is that possible? I have the anat2exf.register.dat files for each subjects's group feat (across runs) but I don't know how to do it for the third level?

Thanks so much, Huiting

On Mon, Jul 16, 2012 at 2:03 PM, Douglas N Greve greve@nmr.mgh.harvard.eduwrote:

You can create a binary mask of the ROI, then use mri_mask to mask out the non-ROI part from the fMRI. does that work? doug

On 07/11/2012 11:25 AM, Huiting Liu wrote:

...

Hello,

I'm trying to do an ROI analysis that crosses the group-level functional activation with specific anatomical structures. Currently the clusters found for our group-level functional activation are too large and need to be separated into many structures. Is there a command I could use that would cross the group level map with each cortical structure generated by freesurfer's recon-all?

Thanks.

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