Actually, I think 1000 is probably fine. Also, you may wan to use permutation since the monte carlo correciton tends to be too liberal. here are instructions

http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MultipleComparisonsV6.0Perm

       

Sorry, found it! It’s 10000 as indicated in the sig.cluster.summary file.

 

Best,

Lea Backhausen

 

------------------------------

Lea Backhausen

Research Assistant

Department of Child and Adolescent Psychiatry, Faculty of Medicine of the TU Dresden, Germany
http://www.uniklinikum-dresden.de

 

From: Backhausen, Lea
Sent: Tuesday, May 29, 2018 4:53 PM
To: 'freesurfer@nmr.mgh.harvard.edu'
Subject: Number of iterations with --cache flag

 

Dear FreeSurfer Experts,

 

I am wondering how many iterations are run in the precomputed Z Monte Carlo simulation when using the --cache flag with mri_glmfit –sim.

Sorry if this has been documented somewhere, I cannot find it – can anyone direct me to the right page?

 

Thank you for your help!

 

Best

Lea Backhausen

 

 

 

------------------------------

Lea Backhausen

Research Assistant

Department of Child and Adolescent Psychiatry, Faculty of Medicine of the TU Dresden, Germany
http://www.uniklinikum-dresden.de

 

 

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