I'm not sure that is a way to do this as it is quite tricky managing the exchangeability in longitudinal data. Maybe PALM can do it. I'm cc'ing Anderson in case he wants to weigh in.
On 7/28/19 7:24 PM, Mark Wagshul wrote:
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Doug,
Thanks. Unfortunately, this is only for the GLM, is there an equivalent version for the linear mixed model? I haven’t seen one. I guess we could figure out how to integrate lme into mri_glmsim, but I’m not sure that’s a better use of our time than manually running the simulations. Your thoughts?
Thanks for the help.
Mark _______________________ Mark Wagshul, PhD Albert Einstein College of Medicine Bronx, NY
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On Jul 28, 2019, at 4:11 PM, Greve, Douglas N.,Ph.D. <DGREVE@mgh.harvard.edu mailto:DGREVE@mgh.harvard.edu> wrote:
FreeSurfer has its own permutation software *MailScanner has detected a possible fraud attempt from "nam02.safelinks.protection.outlook.com" claiming to be* https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MultipleComparisonsV6.0... We also have a handy interface to palm *MailScanner has detected a possible fraud attempt from "nam02.safelinks.protection.outlook.com" claiming to be* https://surfer.nmr.mgh.harvard.edu/fswiki/FsPalm
On 7/27/2019 9:33 PM, Mark Wagshul wrote:
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Great, thanks!
Mark _______________________ Mark Wagshul, PhD Albert Einstein College of Medicine Bronx, NY
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On Jul 27, 2019, at 2:43 PM, Antonin Skoch <ansk@ikem.cz mailto:ansk@ikem.cz> wrote:
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Dear Mark,
I would suggest to use PALM instead:
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PALM supports surface-based data. Each vertex has different area, which has to be accounted when the cluster size is computed.
Antonin Skoch
Dear Freesurfer experts, Hi. We are analyzing cortical thickness data in Freesurfer, longitudinal data in 55 subjects using the linear mixed effects package. We are finding a number of siginificant clusters, and would like to correct for multiple comparisons with permutation testing. We have already run about 2000 permutations, and would like to use TFCE available in randomise rather than empirical methods to set parameters such as the cluster forming threshold.
So, the simple question is, how do we convert our FS format data (these are F statistics at each vertex) into a format which can be read into randomise?
Thanks for any advice you can provide.
Best,
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