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Hi, On the example page (http://www.fmrib.ox.ac.uk/fsl/feat5/detail.html#PairedTwoGroupDifference), C1 should give regions whose activation is greater in A compared to B whereas C2 will give the inverse. But, to say whether something is "activating" or "deactivating", you'll need to look at the parameter estimates (see Featquery). Cheers, David -----Original Message----- From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf Of Rebecca Leigh Sent: Monday, August 10, 2009 10:42 AM To: [log in to unmask] Subject: [FSL] within group deactivation Dear All, I want to run a two sample paired t-test, but looking for deactivation patterns and I am unsure where to put the -1 for this purpose. Any help is appreciated Best Rebecca