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Hi > On 18 Mar 2015, at 15:06, Timothy Lam <[log in to unmask]> wrote: > > Hi Steve, > > I'm really sorry for being very ambiguous about my questions. > > The immediate concern is to figure out how to ignore the lesion with respect to registration. it's not trivial, as you can't use the registration masking options via the FEAT/MELODIC GUIs - but you can use masks if you call flirt and fnirt from the command line - see the inweight/inmask options when you type flirt / fnirt. Also, see http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/randomise/UserGuide#Associated_Tools <http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/randomise/UserGuide#Associated_Tools> Cheers > However, in order to achieve the completeness of my data analysis, I would also have to determine if there are differences in my results with and without lesion masking (so I will need to eventually figure out how to ignore the lesion with regards to the RSNs as well). > > Regards, > > Timothy > --------------------------------------------------------------------------- Stephen M. Smith, Professor of Biomedical Engineering Associate Director, Oxford University FMRIB Centre FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK +44 (0) 1865 222726 (fax 222717) [log in to unmask] http://www.fmrib.ox.ac.uk/~steve <http://www.fmrib.ox.ac.uk/~steve> --------------------------------------------------------------------------- Stop the cultural destruction of Tibet <http://smithinks.net/>