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When I ran group level ICA from the original rs-fMRI data, about 6 of the 70, had very bad registrations to the standard. Using the same registration parameters does not work in my patient population because some are missing huge chunks of brain (sometimes up to half or more of the brain) secondary to stroke or surgery. In these cases, when I ran their individual rs-fMRI data in melodic, the only way I was able to get registration to work at all, was to trick the system and use the original NO-BET mprage as the mprage_brain. Thus the rs-fMRI was actually only masked with the original structural image. Any other combination did not work. So am having difficulty getting group analysis to work without getting these oddly shaped brains registered better to the standard. In these cases melodic ended up confusing sagittal for coronal and large similar errors. Please help. From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf Of Stephen Smith Sent: Thursday, April 11, 2013 11:17 PM To: [log in to unmask] Subject: Re: [FSL] Group Melodic Processing Question Hi - if you have run group-level ICA using the Melodic GUI then you will already have standard-space 4D time series files for all subjects, to use for the dual-regression - it's explained in the manual: http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/DualRegression/UserGuide Cheers. On 11 Apr 2013, at 20:21, Varina Wolf <[log in to unmask]<mailto:[log in to unmask]>> wrote: Hello Experts! I have processed individual rs-fMRI data through Melodic. Now that I am interested in comparing between individuals, how can I use the prior processing to speed up the group analysis. Here are my questions: 1. I am guessing that there must be an intermediate point that the rs-fMRI data is already preprocessed and registered to the individual anatomical scan, that I could plug into the group analysis just prior to registration to the template anatomical MRI? 2. Where would I find that file and what is it called, or something close to it? 3. If I run the data as explained, could you give me an idea what the melodic command line would look like to make this work? Gratefully, Varina --------------------------------------------------------------------------- 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]<mailto:[log in to unmask]> http://www.fmrib.ox.ac.uk/~steve ---------------------------------------------------------------------------