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Keith, Look in spm_slice_vol.m for getting slices out how you want them. I am not totally familiar with the code, but would suggest: 1) do your fmri realignment 2) do your t2 co-reg without reslice such that the .mat is produced. 3) using spm_slice_vol pull out slices of your t2 based on the locations of your fmri slices. I see that John A. has suggested another way to do it as well. His looks a bit more transparent (ie you won't have to use spm_slice_vol by hand). Good luck. Robert >>> Keith Schneider <[log in to unmask]> 08/09/01 10:19AM >>> > The reslicing does the resolution change. > If you co-reg without doing reslice you will retain the original > resolution. During coregistration a mat file is produced that contains the > rigid body translation/rotation paramters. For purposes of normalization, > display etc this mat file will be read and used approprioately. > If you are using your t2 as the image to overlay the activation on then > doing the co-reg without reslce will give you what you want. Just when you > go to the overlay just point the t2, spm will take note of the .mat file. Hello, thank you for your quick reply. I should have been more clear. What I want is a resliced version of my T2 images in the same orientation as the functionals. I am using the alignment and co-registration functions of SPM and then analyzing the data with my own code. I would like to be able to look slice-by-slice at my functional activation overlayed on the T2 images. Is there any way to get SPM to re-slice the T2's while retaining their resolution? Why does reslicing lower the resolution in the first place? keith