The human brain is a huge and complex network in which smaller structures communicate and process information at different scales of time and space. In recent years brain connectivity has become one of the main interests of many leading neuroscience centres all over the world, which investigate different aspects of brain connectivity, in particular the branch called functional connectivity, for many different purposes: from clinic applications in neurological diseases, to basic research both on humans and on experimental models. As a matter of fact, animal models allow the study of much simpler brain networks and structures compared to humans, and they open the possibility to exploit imaging or genetic tools which can’t be performed on humans for technical or ethical reasons.