In one embodiment, a service in a network samples application traffic throughputs for a set of applications present in a network. The service generates a throughput model based on the sampled application throughputs for the set of applications. The service performs anomaly detection on wireless throughput measurements from the network by comparing the wireless throughput measurements to the generated throughput model. The service sends an anomaly detection notification based on a determination that the wireless throughput measurements from the network are anomalous.