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Dear Freesurfer experts,

I am in the processing of running correlation with cortical thickness for almost 500 CSF variables. Thus I would like to use some sort of script. I previously used the common steps (mri_preproc, mri_glmfit and mri_glmfit-sim) but this procedure does not allow a .fsgd file with all the 500 CSF variables in it … correct?

When running qdec many csf variables can be in the file … but then I cannot run it by script … right?

So I wonder if there is a way to use one large file with the CSF data and then to make a script so that each variable is run iteratively until all is finished. Best case scenario I would also like to include snapshots from each correlation analysis.

Is this possible to do?

Thanks

Olof Lindberg