And again,
when I wrote
Note that if you want the "warped" version of the original FA (with the
rim intact) you need to run applywarp with the field you obtained above on
a cropped (to get same FOV) version of the FA image.
that was of course not quite right. You should run it on the _original_ FA
image, but keep in mind that you have registered it to a cropped T1 image.
So any ROIs you want to define should be defined in the cropped image.
Good Luck Jesper
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