Dear Doug,

When I run the:

mri_glmfit-sim \
--glmdir GroupAnalysis_pos.glmdir \
--sim perm 10000 3 permcsd \
--sim-sign pos \
--cwpvalthresh .05

I am not getting my clusters file permcsd.sig.cluster.mgh  with the clusters summary so as you recommended I am running the

mri_volcluster --in Group_Analysis.glmdir/contrast/sig.mgh --mask Group_Analysis.glmdir/mask.mgh --no-fixmni --cwsig Group_Analysis.glmdir/contrast/permcsd.sig.cluster.mgh --sum Group_Analysis.glmdir/contrast/permcsd.sig.cluster.summary --ocn Group_Analysis.glmdir/contrast/permcsd.sig.ocn.mgh --cwpvalthresh .05 --seg cvs_avg35 norm.mgz --csdpdf Group_Analysis.glmdir/contrast/permcsd.pdf.dat --csd Group_Analysis.glmdir/csd/permcsd.j001-contrast.csd --vwsig Group_Analysis.glmdir/contrast/permcsd.sig.voxel.mgh

My question is: it is OK if I am not mentioning any registration or what should I input under --reg while I running the mri_volcluster if my for DTI preprocessing I used the dt_recon which computes for each subject an  fa.nii and register.dat using the Talairach registration and later I registered all my subjects on the CVS space?

Thank you.

AK