I want to coregister the output of eddy to an anatomical image using, for example, flirt.
Which volume of the output of eddy should I use? The first b=0 volume? The mean of the b=0 volumes?
I don't think this should make much of a difference, but my dMRI dataset has 60 b=1000sec/mm^2 volumes with 5 b=0 volumes interspersed evenly among the diffusion-weighted volumes.
Thanks!
Ken
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