Hi Chrissy,
Thank you very much for your input; it was very helpful. Let me recap to see if I understood correctly. My first step should be to register the DWI (and T1) with the B0 field map, and then continue with the following steps (eddy current correction, dtifit, bedpostx, etc.).
And since my mask is originally in the MNI space, can I register it with the B0 as well to put it in the same space as my patient ?
Does that make sense ?
Kindly,
JS
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