Maybe you could compare the original images and the results together.
I would expect check reg to treat these as if they both have the same
orientations. Try this using both spm versions.
It's possible that the flip settings differ between the two SPM
versions. If so, then spm5 will assume that non-NIfTI data have one
orientation, whereas spm8 will assume they have the other. Both
versions will write out the segmented results in NIfTI format, which
encodes left-right orientations in the header.
On 2 February 2012 18:02, Joao Pereira <[log in to unmask]> wrote:
> Hi John,
> Thanks for the quick reply.
> I had segmented them in SPM5 and now I am using SPM8 to do the same thing.
> Comparing the results of both in checkreg I can see the flip. Also, I
> noticed this effect only after checking the glass brain, after performing an
> analysis, and the atrophy locations were also clearly flipped, so it seems
> like a real issue.
> On 2 February 2012 17:56, John Ashburner <[log in to unmask]> wrote:
>> How do you know they are flipped? The important thing is how SPM (and
>> other NIfTI compliant software) view the image orientations. Try
>> displaying the original image and the segmented images together using
>> Bye for now,
>> On 2 February 2012 11:40, Joao Pereira <[log in to unmask]> wrote:
>> >> Dear all,
>> >> I have an odd problem with SPM8 when analyzing old structural 1.5T
>> >> analyze
>> >> images I have stored. After segmentation, the results are flipped left
>> >> to
>> >> right. I have tried converting the images to nii, saving them in SPM,
>> >> in
>> >> FSL, even changing header orientation data, but the results are always
>> >> flipped!
>> >> Any suggestions on how to solve this will be greatly appreciated.
>> >> Best,
>> >> Joćo Pereira