Hello,

Sorry if my questions are very basic, I am somewhat a beginner and really confused. I have three groups of patients and I would like to compare them in terms of functional connectivity for a ROI. Now I am a bit confused about how to proceed. I tried doing it in FSL (creating a GLM and using randomise), but I am not sure a) my design was correct (see attached) and b) how to interpret the contrasts. Is this the preferred way to do it or is there something else? 

And another thing: I would like to perform ANOVA on the individual z-scores, not only group pictures, to get p-values etc. I'm not sure what exactly to feed in R/Matlab/SPSS in order to do that. After processing data with DPARSFA I have files called "ROI_FCMap_Subj_xxx.txt" with 260 rows (=number of time points). Do they show the average connectivity the ROI had with the rest of the brain at each given time point? Are those the filesI need to use for the ANOVA? 

Thanks so much!