That is the idea, but it can definitely be improved so thatıs why this
issue is being worked on further.
Peace
Matt.
On 12/16/16, 12:11 PM, "Antonin Skoch" <[log in to unmask]> wrote:
>Dear Matt,
>
>I meant the second problem (the first is achieved inside topup), i.e. I
>meant registration between the spin-echo EPI field map and the EPI data I
>am correcting.
>
>Could you please guide me how to achieve that?
>
>As I looked to HCP pipeline script TopupPreprocessingAll.sh
>
>https://github.com/Washington-University/Pipelines/blob/master/global/scri
>pts/TopupPreprocessingAll.sh
>
>and it seems (if I understand it correctly) that simple flirt 6 DOF
>registration between EPI data (named "scout" there) and one of the spin
>echo epi "fieldmap" datasets is done to correct for motion between
>"scout" and "fieldmap". So the effect of different distortion is
>neglected in current version of HCP pipeline scripts?
>
>On the other hand, I suppose the effect is indeed small provided the
>datasets are acquired in the same session and there is not a gross
>subject movement (which would lead to exclude the dataset due to motion
>artifacts anyway). What do you think?
>
>Antonin
>
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