Dear Mahmoud,
>
> Could you please let me know how did you apply the eddy (5.0.9) to simulated diffusion data?
> The explanation at Wiki page is for single shell data with AP and PA encoding but the simulated diffusion data provided by Mark Graham is multishell and just in one PE direction.
that makes it even easier. Your acqp.txt will contain a single line and your index.txt will be a file of ones only. I assume Mark has provided a bvals and bvecs file? If so, just use those and that will tell eddy that this is multi-shell data.
Jesper
>
> Thank you,
> Mahmoud
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