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If you want to measure changes in resting state without a connectivity focus, you can consider approaches such as FALFF (http://fcp-indi.github.io/docs/user/alff.html) which measures changes in signal characteristics (in this case frequency) within specific regions. Best of luck, Colin Hawco, PhD Neuranalysis Consulting Neuroimaging analysis and consultation www.neuranalysis.com [log in to unmask] From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf Of Janine Bijsterbosch Sent: August-25-17 8:56 AM To: [log in to unmask] Subject: Re: [FSL] comparing mean response Hi Jaret, I am not entirely sure what you mean when you talk about ‘doing the mean response’. Given that there are no conditions that you can contrast, there really is no such thing as a mean response in resting state data. This is the reason why I suggested looking into different connectivity approaches. Which tutorials were you looking at for this please? Were these from the FSL website? Best wishes, Janine On 21 Aug 2017, at 13:37, Jaret Hodges <[log in to unmask]> wrote: Thank you so much for the reply, I am not so much looking for connectivity as I am for doing the mean response. What I want to do is compare the mean response from the pre to the mean response in the post. My main concern is how to do this analysis using the FSL GUI. I have looked through some of the tutorials but I have found that the links for some of them are dead links now. thank you very much, Jaret This email is in response to this email: Hi Jaret, An empty model will not give you any results. What type of resting state analysis do you want to run? If it is a seed-based analysis then you need to extract the timeseries from the seed ROI and feed that in. Alternative analyses that don’t use feat at all include an ICA + dual regression analysis, or using FSL nets to look at connectivity between pairs of nodes. I think you need to familiarise yourself a little with different options for resting state analysis (which are typically quite different from the first-level feat approach) and decide which approach is most applicable to your data/hypotheses. Best wishes, Janine ----- Dr Janine Bijsterbosch Postdoctoral Researcher FMRIB Centre, University of Oxford John Radcliffe Hospital Oxford, United Kingdom [log in to unmask]