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My best guess is the usual one (which may have been repeated a few times on the mailing list). Try reorienting your images before you use them in SPM. If the origin is more than about 3cm from the AC, or the orientation is out by more than about 15 degrees, then the initial affine registration is likely to mess up. Best regards, -John On Sunday 07 September 2008 17:25, Cyrus Raji wrote: > Hi, All > > So I've been attempting to run VBM 5 on a structural MRI image and I keep > getting bad results for this one subject in particular (see picture). > However, I do not believe that it is a problem with the scan itself because > when I run the unified segmentation using vbm, I get good results and when > I've segmented this scan with spm2/vbm2 in the past I've also gotten good > results. My questions (for Dr. Gaser or any other VBM gurus are): > > 1. Why am I getting these discordant results between the vbm5 and spm5 > processing streams and how I do I fix the discrepancy? > > 2. If I want to do VBM, do I need to use the "estimate and write" options > from the vbm5 toolbox? Why not just use the standard spm5 processing > stream? > > Any and all input is much much appreciated! > > Thank you, > > Cyrus