Agent-based models are increasingly used by urban specialists, supplanting the simulation models using differential equations which were more popular earlier. These models already made reference to the theories of self-organisation and to mechanisms of evolution not so far from those used today to describe the emergence of macroscopic properties or structures in a bottom-up process from interactions operating at the microlevel. Moreover there is less difference than often suggested in the literature between the two forms of modelling – differential equations and multi-agent models—in the way they integrate principles of urban theory. To test this assumption, we compare models made of systems of differential equations (Allen's model firmly rooted in self-organisation theory and the model developed by Weidlich and Haag, affiliated to synergetic theory) with multi-agent models (SIMPOP family) designed to meet the same task: Simulating the differentiated dynamics of urban entities over the medium to long term from their functional economic specialisation. We show that multi-agent systems are providing interesting solutions for the modelling method, because of their greater ability to simulate the emergence of geographical macrostructures from different levels of interaction.