In this work we consider a simulation strategy for assembling Janus nanoparticles in oil-in-water emulsion droplets by evaporation based on the dissipative particle dynamics method. Our simple method reproduces all the observed cluster configurations that have been explored experimentally. In addition, the kinetic process of cluster formation is systematically investigated. We observe a structural transition from spherical packings to minimal second-moment configurations via visual inspection and a simple angle parameter. We reveal that the critical volume at which the transition occurs is a cubic function of the number of particles, N. Our approach also allows us to anticipate higher-order clusters, overcoming the limitations of the standard methods in the literature. Similarly to small N values, we find that for each N in the range of 16-39, all final clusters have a unique configuration.