Hi,
It sounds as if eddy_correct might not be doing a good job of eddy current correction. The new tool, eddy, is much more accurate and we would recommend that you use this tool if you can.
All the best,
Mark
On 4 Aug 2013, at 11:20, Kreilkamp Barbara Anne Katharina <[log in to unmask]> wrote:
> Dear FSL list,
>
> Has anyone ever tried to evaluate the eddy_correct script (which just simply calls flirt) with a second run on the already corrected data?
>
> My hypothesis was, that there should ideally be no correction necessary at all.
> Well I was wrong, and also running the ecclog file with the ec_plot.sh script still showed me high motion parameters.
> can I take this as an indication that there is still a lot of residual motion in my only once corrected data?
>
> (Of course I had also been using the movie tool in FSL for the eddy corrected data, but there seemed to be no difference between running eddy_correct only once or twice.)
>
> I would appreciate your thoughts on this very much,
> Thanks and all the best,
> Barbara
>
> cimec/ Università degli Studi di Trento
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