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Hi Antoine, You can use fslmeants as indicated. It will produce one value per subject per mask, which can be analysed using other software (e.g. SPSS) or, if you want, use permutation methods as available in PALM (available here <https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/PALM>), as that will allow correction for multiple testing just like randomise, but for non-imaging data as this. All the best, Anderson On 28 February 2015 at 15:50, Antoine Nasimian <[log in to unmask]> wrote: > Dear FSL experts. > I did TBSS analysis (just I ran the 4 scripts, without Randomise) to > generate all_FA_skeletonized. > I am interested in calculating the mean FA in the cortico spinal tract. > > - Is is correct technically if I create a 4D mask for the corticospinal > tract(from all_FA_skeletonized depending on JUH atlas) then I include this > mask in the following command line: > > fslmeants -i all_FA_skeletonized -m my 4D mask > > - Can I include the output of the previous command line (FA values) in a > Bayesian analysis or I correct it for multiple comparisons using FDR or > Bonferroni methods? > > Thanks, > Antoine > > >