Asymptotic Enumeration of Subclasses of Level-$2$ Phylogenetic Networks

This paper studies the enumeration of seven subclasses of level-$2$ phylogenetic networks under various planarity and structural constraints, including terminal planar, tree-child, and galled networks. We derive their exponential generating functions, recurrence relations, and asymptotic formulas. Specifically, we show that the number of networks of size $n$ in each class follows: \[ N_n \sim c \cdot n^{n-1} \cdot γ^n, \] where $c$ is a class-specific constant and $γ$ is the corresponding growth rate. Our results reveal that being terminal planar can significantly reduce the growth rate of general level-2 networks, but has only a minor effect on the growth rates of tree-child and galled level-2 networks. Notably, the growth rate of 3.83 for level-$2$ terminal planar galled tree-child networks is remarkably close to the rate of 2.94 for level-$1$ networks.