Computing the Tropical Abel--Jacobi Transform and Tropical Distances for Metric Graphs

Metric graphs are important models for capturing the structure of complex data across various domains. While much effort has been devoted to extracting geometric and topological features from graph data, computational aspects of metric graphs as abstract tropical curves remains unexplored. In this paper, we present the first computational and machine learning-driven study of metric graphs from the perspective of tropical algebraic geometry. Specifically, we study the tropical Abel--Jacobi transform, a vectorization of points on a metric graph via the tropical Abel--Jacobi map into its associated flat torus, the tropical Jacobian. We develop algorithms to compute this transform and investigate how the resulting embeddings depend on different combinatorial models of the same metric graph. Once embedded, we compute pairwise distances between points in the tropical Jacobian under two natural metrics: the tropical polarization distance and the Foster--Zhang distance. Computing these distances are generally NP-hard as they turn out to be linked to classical lattice problems in computational complexity, however, we identify a class of metric graphs where fast and explicit computations are feasible. For the general case, we propose practical algorithms for both exact and approximate distance matrix computations using lattice basis reduction and mixed-integer programming solvers. Our work lays the groundwork for future applications of tropical geometry and the tropical Abel--Jacobi transform in machine learning and data analysis.