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I can't quite figure out what you did, so it's difficult to say anything about what you may (or may not) have done wrong. How did you normalise? What sort of data did you use? What do you mean when you say "the T1 image was shifted relative to the template image"? You say that "part of frontal lobe was missing", but was it missing because it fell outside the FOV of the image, or was it inside the FOV but set to zero? Best regards, -John On 26 January 2012 15:32, Farras Abdelnour <[log in to unmask]> wrote: > Dear SPM community, > I am encountering issues using SPM8 for segmentation purposes. After > noticing that the normalized image was shifted in such a way that part of > frontal lobe was missing, the T1 image was shifted relative to the template > image. The resulting image registration was verified, and the modified T1 > image matched the template quite well. However, some of the resulting masks > now have part of the visual cortex missing. > > If anyone can explain what I may have done wrong I would be most grateful. > > With thanks. > -- > > Farras Abdelnour > http://sacklerinstitute.academia.edu/FarrasAbdelnour > Imaging Data Evaluation and Analytics Laboratory (IDEAL) > Department of Radiology | Weill Cornell Medical College > 515 E. 71st St., S-125 | New York, NY 10065 > email: [log in to unmask] > http://ideal-cornell.com