Why not just start over w/ the raw images and go from there? If you
aren't doing segmentation, I don't think you need to align your images
so that the origin is at the AC. You can just do realign, normalise, smooth.
If you don't have access to the raw images for some reason (you should
never overwrite the original images), Coreg might work (if you have 233
images that are in the same orientation, and the other 67 are in another
orientation). Just Coreg to image001, for example, and choose as the
target image234, and choose for 'other' image235-image300.
Julie McEntee wrote:
> Hi all-
>
> I am using SPM5 (w/ 3381 updates) on a Mac OS X v. 10.5.8, Matlab R2008a.
>
> My fMRI images are in ANALYZE format (.hdr/.img; I am aware of the
> issues w/ ANALYZE, but the study was started prior to my involvement-
> I have checked for correct R/L orientation).
>
> I have to use Display and do reorientation to get the images as close
> as possible to EPI template orientation (including setting 0, 0, 0 to
> AC) prior to preprocessing. An error was made during this step such
> that only 233 of 300 images were “reoriented”. I attempted to correct
> this by displaying the “partially reoriented” image, choosing
> reorient, and choosing all 300 images. However, this did not reorient
> the remaining images, as evidenced by the x, y, z constant terms in
> the linear components output of normalization step were WAY off (e.g.,
> +/- 20). The reorientation error was discovered after preprocessing
> the partial image sets, during which normalization constants were no
> greater than +/- 5.
>
> Does anyone know of a way to reorient the images without starting from
> the beginning (as those of us who still do this know, it is very time
> consuming).
>
> Thank-you for your suggestions,
>
> Julie
>
> Julie E. McEntee, MA, CCRP
> Senior Research Program Coordinator
> Department of Psychiatry- Neuroimaging
> Johns Hopkins University School of Medicine
> 600 N. Wolfe St./Phipps 300
> Baltimore, MD 21287
> Phone: 410-502-0468
> Fax: 410-614-3676
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