We present tools for a network topology based characterization of heterogeneity in multiagent systems, thereby providing a framework for the analysis and design of heterogeneous multiagent networks from a network structure view-point. In heterogeneous networks, agents with a diverse set of resources coordinate with each other. Coordination among different agents and the structure of the underlying network topology have significant impacts on the overall behavior and functionality of the system. Using constructs from graph theory, a qualitative as well as a quantitative analysis is performed to examine an inter-relationship between the network topology and the distribution of agents with various capabilities in heterogeneous networks. Our goal is to allow agents maximally exploit heterogeneous resources available within the network through local interactions, thus exploring a promise heterogeneous networks hold to accomplish complicated tasks by leveraging upon the assorted capabilities of agents. For a reliable operations of such systems, the issue of security against intrusions and malicious agents is also addressed. We provide a scheme to secure a network against a sequence of intruder attacks through a set of heterogeneous guards. Moreover, robustness of networked systems against noise corruption and structural changes in the underlying network topology is also examined.