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Dear Bettyann, when you run featregapply on a directory it will detect if fnirt has been run, and if it has it will apply those warps. Jesper On 17 Oct 2013, at 02:45, bettyann BA <[log in to unmask]> wrote: > Is there such a thing as featregapply but for fnirt? Does Feat call some routine/script to transform cope and varcope volumes to MNI template space using the results from fnirt? > > Thanks, > - BettyAnn