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Hi Douglas,
Thanks a lot for your answers.
1) For the permutations, would you recommend using this for controlling for MC in cortical thickness analyses too? Why is it recommended to use permutation simulation as opposed to Z Monte Carlo simulation for an LGI analysis?
2) I've attached here the output from ls -Rl $FREESURFER_HOME/subjects/fsaverage.
Thanks again, Colleen
On 2018-11-23 16:26, C.P.E. Rollins wrote:
Dear Freesurfer Developers, I have a 2-part question:
- I was advised to use permutation to control for multiple
comparisons in an LGI analysis, would you mind elaborating how to do this in command line (in terms of command and parameters)? 2) In running "mri_glmfit-sim --glmdir lh.5.lgi_MAN_new.glmdir --cache 1.3 pos --cwp 0.05 --2spaces --debug", I receive the following error (attached). I was wondering if you might have any advice? The file /home/cper2/BeneMin/Freesurfer/fsaverage/surf/lh.white exists and I can view it in freeview.
Many thanks, Colleen