In what variable of the NIFTI header is this info represented?
Quoting John Ashburner <[log in to unmask]>:
> SPM assumes that the image orientation is what the data format says it
> is. If the data were to be correctly converted to NIfTI format, then
> SPM should handle them perfectly fine. With the older ANALYZE format,
> left-right orientations are not specified in the headers, so SPM needs
> to be explicitly told what the orientations are.
> Best regards,
> On Tue, 2010-05-25 at 17:05 +0100, Stephen Paisey wrote:
>> Dear Developers and users,
>> We have imaged rats with a brain lesion on the right hand side on a
>> Bruker scanner using Paravision 5.0. I have then used analyze 9.0
>> to convert the raw bruker files into and img/hdr file pair. The
>> images in analyze 9.0 are displayed the correct way around but when
>> I load them in spm5 (i am using this version for its compatibility
>> with the spmmouse extension) i get an image which has been left
>> right inverted i.e. the lesion is now on the left side of the
>> brain. I can get around this by flipping the image the wrong way
>> around before i read it into spm but this is clearly a bug which
>> could lead to totally wrong experimental results. It is lucky i had
>> non symmetrical rats otherwise i probably wouldn't have spotted
>> the error.
>> Best Regards
> John Ashburner <[log in to unmask]>