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Dear Luke, I'm afraid we are still working on a longitudinal version of vertex analysis. You can't implement a paired t-test with the current FIRST tools. However, you could save out the vertex coordinates using the --saveVertices option and then use other statistical packages to implement a multivariate paired t-test. Hope that helps. All the best, Mark On 5 May 2012, at 05:49, Luke wrote: > Dear FSL-Experts! > > I wonder if FIRST can be used for longitudinal studies ( in my case 2 groups (Placebo / Intervention) examined at two points (T1/T2)). The analysis of the subcortical volumes via fslstats already revealed the expected result. Now I would like add a vertex analysis to infer shape changes due to the on the effect of the intervention. Is there any issue of theoretical or practical kind that might argue against performing a vertex analysis in this situation? Any recommendations for the first_utils options in this situation? > > Best wishes and many thanks in advance, > > Luke >