One of the aims of sewer networks is the protection of population against floods and the reduction of pollution rejected to the receiving water during rainy events. To meet these goals, managers have to equip the sewer networks with and to set up real-time control systems. Unfortunately, a component fault (leading to intolerable behaviour of the system) or sensor fault (deteriorating the process view and disturbing the local automatism) makes the sewer network supervision delicate. In order to ensure an adequate flow management during rainy events it is essential to set up procedures capable of detecting and diagnosing these anomalies.This article introduces a real-time fault detection method, applicable to sewer networks, for the follow-up of rainy events. This method consists in comparing the sensor response with a forecast of this response. This forecast is provided by a model and more precisely by a state estimator: a Kalman filter. This Kalman filter provides not only a flow estimate but also an entity called ‘innovation’. In order to detect abnormal operations within the network, this innovation is analysed with the binary sequential probability ratio test of Wald. Moreover, by crossing available information on several nodes of the network, a diagnosis of the detected anomalies is carried out. This method provided encouraging results during the analysis of several rains, on the sewer network of Seine-Saint-Denis County, France.