You can use mri_segstats with the concatenated/smoothed data as the input and the label as the --slabel option. Use --avgwf to get the output. Also, spec --excludeid 0 so that it only gives you the data from the label. doug

On 03/08/2013 04:33 AM, Andreas Werner wrote:

Dear Freesurfer list,

I want to do a ROI analysis on longitudinally processed cortical thickness data in fsaverage space. I followed the steps proposed for long. processing on http://surfer.nmr.mgh.harvard.edu/fswiki/RepeatedMeasuresAnova (i.e sample each time point onto the average surface, concatenate the data into a single file and smooth it) The design with three timepoints is the same as the design decribed on the webpage.

I have manually drawn the labels I want to use as ROIs in tksurfer on the fsaverage inflated surface, which worked. But I dont know how to extract the thickness values (or the mean value/median etc) in each manually defined ROI-label from the concatenated and smoothed .mgh data file (I could not find a solution to this yet)

Can anybody help?

Thank you very much, Andreas

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