Hi Mark,
I have a short follow-up question: I ran FNIRT and the result looks nice (for the brain part; the skull is somehwat deformed though); however, when I run applywarp on the example_func the result looks also somewhat distorted and not as good as with FLIRT (the same happens when I ran FNIRT using the FEAT gui on a subject without lesion and without mask).
I have uploaded the registration results, in case you would like to see them:
http://dl.dropbox.com/u/3321090/example_func2highres.png
http://dl.dropbox.com/u/3321090/example_func2standard.png
http://dl.dropbox.com/u/3321090/highres2standard.png
Do you have a recommendation to solve this?
Many thanks and best regards
Carsten
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