Hello,
Yes, the command below will put the T1 image in the T2 space ( adjusting for s/q form, resolution and FOV ) without registering the images - so preserving any movement etc.
Kind Regards
Matthew
> On 4 Jul 2016, at 06:40, Francesco Sforazzini <[log in to unmask]> wrote:
>
> Dear FSL experts,
> I have a question regarding the use of -usesqform in FLIRT.
> I'm trying to align two different scans (for example T1 and T2) that have different resolution and Field of View. I want the T1 image to have the same resolution and FOV of the T2, without registering them together. I would like to have them in the same space but at the same time I would like to keep any motion information between the 2 scans. If the patient moved the head between the two scans I would like to see this movement once I have everything in the same space.
> Is it correct to run something like that?
>
> flirt -in T1.nii -ref T2.nii -out T1_to_T2 -usesqform -applyxfm
>
> Thanks in advance for any help.
> Best regards
>
> Francesco
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