You do this by specifying a mask or label to mri_glmfit, then mri_glmfit-sim will automatically use this mask. Note that you have to run the simulation (ie, you cannot use --cache). In this case you may want to run mri_mcsim. See http://surfer.nmr.mgh.harvard.edu/fswiki/BuildYourOwnMonteCarlo
doug
On 09/11/2014 10:49 AM, Jon Alan Wieser wrote:
HI freesurfer experts
We were wondering if it is possible to restrict the Monte Carlo analysis run by mri_glmfit-sim to a specific region fo the surface , instead of the whole surface, by using a mask or label to specify the ROI?
I didn't see a --mask or --label option in mri_glmfit-sim
Thank
Jon
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