First, run mris_preproc and mri_surf2surf commands as before to create a stack of P2 and P3. If you ran mri_glmfit-sim on P1,  then you will have an "ocn" output file. You can run
mri_segstats --i P2P3.stack.mgh --seg ocn.mgh --id N --avgwf P2P3.means-in-clusterN.dat
where N is the number of your cluster
P2P3.means-in-clusterN.dat will have a row for each subject in the stack, the value will be the mean in cluster N

On 8/13/18 11:48 PM, Martin Juneja wrote:

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For instance, if there is any way to extract spatial location of cluster X1 and use this location to extract thickness values of all the subjects from P2 and P3, that way I can perform two-sample t-test. I am not sure if that's feasible and if so, then how can we do that?

On Mon, Aug 13, 2018 at 7:04 PM, Martin Juneja <mj70481@gmail.com> wrote:

Hi experts,

I found a cluster X1, which showed significant difference in cortical thickness between two groups C1 and P1, determined using mris_preproc, mri_surf2surf and mri_glmfit commands.

I am interested in determining if the same cluster X1 has significantly different cortical thickness group between two other groups P2 and P3.

I would really appreciate if you could please give me the step-by-step guidance how this can be done.

Thanks.

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