Hi Alfonso,

I am very interested in this discussion. I am currently performing a seed-based, longitudinal (7 time points) connectivity analysis, examining significant changes in connectivity within subjects over time. I have tried using the Conn toolbox statistical thresholds (using height-threshold of uncorrected p < .001 in conjunction with extent, cluster FWE p < .05) and have compared this with using SPM8 peak-level FWE p < .05 threshold, and have gotten quite different results. Would you recommend one method over the other in terms of the optimal way to analyze longitudinal, seed-based resting state data? With the Conn route, my the significant clusters are much larger than using peak-level threshold with SPM8, in which the cluster sizes are typically less than 10 voxels. 

Any suggestions would be greatly appreciated :)

Thanks for your help!
Kaitlin