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Hi,
try to:
i) generate a CSF mask
ii) mask and inverst your FLAIR to obtain an image which has a contrast
similar to the T1
iii) register this to MNI
iv) apply your registration to the original FLAIR.
Let me know if this works.
Cheers,
Andreas

Am 13.01.12 02:52 schrieb "John Smith" unter
<[log in to unmask]>:

>Thank you for your reply, Mark.
>
>Unfortunately, I do not have T1 images; I only have FLAIR.
>
>Regards,
>John