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Hi - it's not very clear what you're asking, as I can't tell what programs/approaches were used to create the inputs to the analyses you're asking about? Cheers. On 24 Oct 2012, at 00:24, Jiyang Jiang wrote: > Dear FSLers, > > Sorry for re-posting this, but the previous post was probably pushed to the bottom of the queue by large amount of new ones. > > I need some suggestions on randomise output. > > 1). I use *randomise* to do a paired t test of hippocampal volumes at two time points, to see on which subfields the atrophy occured in the follow-up period. I tried both TFCE and voxel-based thresholding at both 1000 and 5000 permutations. I displayed the output in FSLview with intensity being 0~1, aiming to see the statistical outcome of the whole hippocampi. However, the boundary was not closing with some gap near the tail. My understanding of this gap was that the p value for these regions were 1, making (1-p) being 0, and therefore displayed as transparence. Was my understanding correct? Is there anyway to prove my thought? (P.S. the mask is closed) > > 2). I wanted to show the results in a 3D image. However, since the statistics were only showed on the hippocampal boundary, the display was hollow. And since the gap mentioned in the first question, there were a few leaks on the surface, making it looking ugly. I was thinking of projecting the result onto a hippocampi template. But it seemed that most templates would submerge the statistical significance. What would be your suggestion of the best way to present it in a journal paper? > > I really appreciate any of your help! > > Thanks and best regards, > Jiyang > --------------------------------------------------------------------------- Stephen M. Smith, Professor of Biomedical Engineering Associate Director, Oxford University FMRIB Centre FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK +44 (0) 1865 222726 (fax 222717) [log in to unmask] http://www.fmrib.ox.ac.uk/~steve ---------------------------------------------------------------------------