Dear Josh,
if your are running plain vanilla eddy (no slice to volume) I _think_ you can take take the .eddy_parameters file from your first run, pass that in to the --init option, set --repol and set --niter to 0. Don’t forget to change the --out so you don’t overwrite your old results.
You’ll need to check the results, but if I remember right you should be able to do it like that.
J
> On 23 Jan 2019, at 15:05, Josh Robinson <[log in to unmask]> wrote:
>
> FSL experts,
>
> I am wondering if there is a way to run outlier correction after eddy using the outlier maps that is output? We would like the see the differences between our data with and without outlier correction using --repol. Since eddy detects outliers even without setting --repol, can we possibly use these outlier output reports to perform outlier correction after the fact, rather than running eddy twice with and without --repol?
>
> Thanks in advance,
>
> Josh
>
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