On 9/7/2020 10:52 PM, Paul wrote:

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Dear Freesurfer Experts, I have few questions regarding CWP values from mri_glmfit-sim using --cwp 0.05, --cwp 0.1, --cwp 0.999. Using the 3 three commands below (A, B and C): A. mri_glmfit-sim  --glmdir lh_status.glmdir --perm 10000 1.3 abs --cwp 0.05 --2spaces --bg 1 B. mri_glmfit-sim  --glmdir lh_status.glmdir --perm 10000 1.3 abs --cwp 0.1 --2spaces --bg 1 C. mri_glmfit-sim  --glmdir lh_status.glmdir --perm 10000 1.3 abs --cwp 0.999 --2spaces --bg 1 I end up with the same significant ClusterNo 1.  (in terms of Max, VtxMax, Size(mm^2), MNIX, MNIY, MNIZ, NVtxs, WghtVtx, Annot) However, the CWP is 0.00040, 0.00140, and 0.00020 for A, B and C respetively. I was expected after 10,000 iterations, the CWP would be more closely matched or even convergent. Could you please let me know if this result is typical after 10,000 iterations? Also, should I be using more iterations (say 20k or more 100k?) to reach convergence across A, B, and C or is it usual to just report A, B or C?

I don't understand. All you are changing is the CWP threshold? The final CWP value for a cluster should not be changing at all. If this is the case, can you send me the summary file for each?

Kind regards, Paul

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