Hi Antonella, have you looked at the help (--help) for the mri_glmfit and mri_glmfit-sim functions? If you still have questions after that let me know.
doug
ps. If you're still learning about multiple comparison correction, I would recommend reading the following papers. They discuss validating gaussian random fields using monte carlo simulations
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/hayasaka.2003.ni.1014.clustersize.pdf ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/hagler.2006.ni.surfcluster.pdf
Antonella Kis wrote:
Dear Doug,
Can you please give me some details about how the corrections by multiple comparisons are done? Which step in the following code is doing the corrections?
Are the corrections for multiple comparisons done by cache or by cwpvalthresh or the corrections are done by some parts that are implemented in the simulator (the Monte Carlo simulation)? I am trying to better understand this simulator coding.
mri_glmfit-sim \ --glmdir rh.age.glmdir \ --cache 2 neg \ --cwpvalthresh .025 \ --overwrite
Thank you very much. AK