Hi Renske,
you can use the -rl mri/orig/001.mgz switch in mri_convert ("reslice
like"). Note that depending on the resolution etc. of the 001.mgz it may
do an additional interpolation. You shouldn't need to do this though for
registration as it should read this information from the header. Martin
Reuter (ccd) has some very nice tools for this kind of thing.
cheers,
Bruce
On Tue, 18 Aug 2009, Renske de Boer wrote:
> Hi,
>
> I would like to register a FreeSurfer segmentation (or actually the
> corresponding T1 image) to another scan of the same subject. In order to
> perform this registration, the mri/T1.mgz file needs to have the same
> orientation as the original T1 scan (mri/orig/001.mgz). Resampling is
> not necessary since I want to prevent multiple interpolations and
> resampling is already necessary in the registration/transformation.
>
> How can I convert mri/T1.mgz to the same orientation as the original T1
> scan?
>
> Thanks!
> Renske
>
>
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