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It looks like your images were acquired sagittally, but the headers encode an axial orientation. Before trying to segment the images, you'll need to correct the orientation using the Display button. You'll need to enter various +/- 90 degree rotations (ie pi/2 rotations, because Display works in radians) until you get the right ones. Once you've done this, hit the reorient images button and apply the same transformation to all images that have the same wrong information in their headers. You may also need to try to figure out which is the left or right side of the brain. If the headers are wrong, then there's no way that SPM can work out which is left and which is right. If you use DICOM conversion routines that support NIfTI, then the headers should be written correctly. Best regards, -John On 2 March 2011 03:01, Carolina Valencia <[log in to unmask]> wrote: > Hi all, > > I am having problems with the segmentation step within SPM8. I have gotten deformed images (please see attached jpeg images). I have tried to adjust some of the segmentation defaults (gaussian, space), but have gotten similar results in each case. > > Thanks in advance, > > Carollina >