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And, if using the -e option, make sure that you are using the version of randomise that is part of FSL 4.1.9. (There is a bug with the -e option in previous versions). cheers, -MH On Tue, 2011-11-15 at 11:37 -0500, Yingying Wang wrote: > You need to use "-e" option to define the exchangeability between the > two time points. -e design.grp > > If the first 50 points are from your first time points, the second 50 > points are from your second data points. Here is the example > design.grp for randomise. The two scans are from the same subject. > Thus, they might be correlated. You need to count for that. > Otherwise, program will have problem with TFCE correction. It > happened to me before. > > design.grp: > should be the > 1 > 2 > 3 > .. > 50 > 1 > 2 > 3 > ... > 50 > > > > >>> SUBSCRIBE FSL Jay <[log in to unmask]> 11/15/2011 9:10 AM >>> > Hello, > > I am trying to run randomise for repeated measures on baseline (50 > scans) and followup data( 50 scans) as a paired analyses. In my design > matrix , i have first 3 columns to model group, time, interaction > followed by 50 columns to model the categorical effect. Hence, the > size of design matrix is (100 X 53). I have attached the design matrix > (design.mat). > > When i run randomise on my TBSS data using this design matrix, i get > the following Warning ( i have pasted the terminal text below ). For > some reason tfce is not able to handle it. Can you please explain why > and what is the work around for this situation? > > ============================================================================ > > FIU-iMac08:stats jay$ randomise -i all_FA_skeletonised -o tbss -m > mean_FA_skeleton_mask -d design.mat -t design.con -n 5000 --T2 -V > randomise options: -i all_FA_skeletonised -o tbss -m > mean_FA_skeleton_mask -d design.mat -t design.con -n 5000 --T2 -V > Loading Data: > Data loaded > 9.32066e+28 permutations required for exhaustive test of t-test 1 > Doing 5000 random permutations > Starting permutation 1 (Unpermuted data) > Starting permutation 2 > Warning: tfce has detected a large number of integral steps. This > operation may require a great deal of time to complete. > > ============================================================================ > > Regards > Jay >