Dear Lucy,
it looks like your complex images (real and imag) are left-right swapped compared to the images you gave as input to topup (mAPPA).
My guess would be that somewhere among your matlab calls to create real.nii and imag.nii a left-right swap takes place, and because of that applytopup effectively applies the field from the left hand side to the right hand side and vice versa.
Jesper
> On 9 Jan 2017, at 14:09, Lucy Hiscox <[log in to unmask]> wrote:
>
> Great that works.
>
> Should be sent now!
>
> Cheers
> Lucy
|