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: > > External Email - Use Caution > > 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 > > Sent from my iPhone > > On Jul 28, 2019, at 4:11 PM, Greve, Douglas N.,Ph.D. > <[email protected] <mailto:[email protected]>> 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/MultipleComparisonsV6.0Perm >> 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: >>> >>> External Email - Use Caution >>> >>> Great, thanks! >>> >>> Mark >>> _______________________ >>> Mark Wagshul, PhD >>> Albert Einstein College of Medicine >>> Bronx, NY >>> >>> Sent from my iPhone >>> >>> On Jul 27, 2019, at 2:43 PM, Antonin Skoch <[email protected] >>> <mailto:[email protected]>> wrote: >>> >>>> External Email - Use Caution >>>> >>>> Dear Mark, >>>> >>>> I would suggest to use PALM instead: >>>> >>>> *MailScanner has detected a possible fraud attempt from >>>> "nam02.safelinks.protection.outlook.com" claiming to be* >>>> https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/PALM/UserGuide >>>> <https://nam02.safelinks.protection.outlook.com/?url=https%3A%2F%2Ffsl.fmrib.ox.ac.uk%2Ffsl%2Ffslwiki%2FPALM%2FUserGuide&data=02%7C01%7Cmark.wagshul%40einstein.yu.edu%7Ca32b0472033a420f1ea508d71397c21a%7C04c70eb48f2648079934e02e89266ad0%7C1%7C0%7C636999414844352500&sdata=wODbvJGuGHP8dlfhO4tJjX8Ype0ph%2FbXrjMkTsGFfD8%3D&reserved=0> >>>> >>>> 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, >>>> >>>> Mark >>>> _______________________________________________ >>>> Freesurfer mailing list >>>> [email protected] <mailto:[email protected]> >>>> https://nam02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer&data=02%7C01%7Cmark.wagshul%40einstein.yu.edu%7Cb7ea74f6c51b44fac3a508d712c25393%7C04c70eb48f2648079934e02e89266ad0%7C1%7C0%7C636998498148426272&sdata=hwa50qaC%2FS3Ma1o%2Bwy20l99PJ3mInnB%2FJqcX192PWvY%3D&reserved=0 >>>> >>>> <https://nam02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer&data=02%7C01%7Cmark.wagshul%40einstein.yu.edu%7Ca32b0472033a420f1ea508d71397c21a%7C04c70eb48f2648079934e02e89266ad0%7C1%7C0%7C636999414844362494&sdata=eoEproOAVUGqZFzJhjp47oUBmmjlqxOQstUL7mzs0d0%3D&reserved=0> >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> [email protected] >>> *MailScanner has detected a possible fraud attempt from >>> "nam02.safelinks.protection.outlook.com" claiming to be* >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> _______________________________________________ >> Freesurfer mailing list >> [email protected] <mailto:[email protected]> >> https://nam02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer&data=02%7C01%7Cmark.wagshul%40einstein.yu.edu%7Ca32b0472033a420f1ea508d71397c21a%7C04c70eb48f2648079934e02e89266ad0%7C1%7C0%7C636999414844382483&sdata=kgZ%2Fj6%2BWbJxmAXz4mpdm6Z%2FZ2UHnnDSEswsPkGTFaVI%3D&reserved=0 > > _______________________________________________ > Freesurfer mailing list > [email protected] > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list [email protected] https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
