Dear Josh,
there is no need to align them beforehand.
Jesper
> On 26 Sep 2018, at 16:10, Josh Robinson <[log in to unmask]> wrote:
>
> Hello FSL experts,
>
> We have two identical DTI acquisitions that are collected back to back. Each scan has 30 directions, and one b0 A>P, so we are skipping topup and going straight into eddy. We will concatenate the two scans together to run through eddy but we are unsure if we should align them to each other beforehand.
>
> Any guidance/rationale would be greatly appreciated.
>
> Thank you,
>
> Josh Robinson
>
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