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Phylogenetic trees are the fundamental mathematical representation of evolutionary processes in biology. They are also objects of interest in pure mathematics, such as algebraic geometry and combinatorics, due to their discrete geometry.…
A vertex $v\in V$ is said to resolve two vertices $x$ and $y$ if $d_G(v,x)\ne d_G(v,y)$. A set $S\subset V$ is said to be a metric generator for $G$ if any pair of vertices of $G$ is resolved by some element of $S$. A minimum metric…
We introduce the first graph kernels for metric graphs via tropical algebraic geometry. In contrast to conventional graph kernels based on graph combinatorics such as nodes, edges, and subgraphs, our metric graph kernels are purely based on…
For a graph $G = (V, E)$, the $\gamma$-graph of $G$, denoted $G(\gamma) = (V(\gamma), E(\gamma))$, is the graph whose vertex set is the collection of minimum dominating sets, or $\gamma$-sets of $G$, and two $\gamma$-sets are adjacent in…
In this paper we study a construction of algebraic curves from combinatorial data. In the study of algebraic curves through degeneration, graphs usually appear as the dual intersection graph of the central fiber. Properties of such graphs…
The gonality of a smooth geometrically connected curve over a field $k$ is the smallest degree of a nonconstant $k$-morphism from the curve to the projective line. In general, the gonality of a curve of genus $g \ge 2$ is at most $2g - 2$.…
Tropical curves in $\mathbb{R}^2$ correspond to metric planar graphs but not all planar graphs arise in this way. We describe several new classes of graphs which cannot occur. For instance, this yields a full combinatorial characterization…
The $r$th gonality of a graph is the smallest degree of a divisor on the graph with rank $r$. The gonality sequence of a graph is a tropical analogue of the gonality sequence of an algebraic curve. We show that the set of truncated gonality…
The moduli space $M_g^{trop}$ of tropical curves of genus $g$ is a generalized cone complex that parametrizes metric vertex-weighted graphs of genus $g$. For each such graph $\Gamma$, the associated canonical linear system $\vert…
Consider a drawing of a graph $G$ in the plane such that crossing edges are coloured differently. The minimum number of colours, taken over all drawings of $G$, is the classical graph parameter "thickness". By restricting the edges to be…
A one-degree-of-freedom graph is a graph obtained from a minimally rigid graph in the plane and removing an edge. For such graph, the set of realisations with fixed edge length, modulo rotations and reflections, is an algebraic curve. The…
We undertake a combinatorial study of the piecewise linear map g : R^{2m+2n} --> R^{mn} which assigns to the four vectors a, A in R^m and b, B in R^n the m by n matrix given by g_{ij} = min (a_i + b_j, A_i+B_j). This map arises naturally in…
A graph profile records all possible densities of a fixed finite set of graphs. Profiles can be extremely complicated; for instance the full profile of any triple of connected graphs is not known, and little is known about hypergraph…
We give a constructive proof using tropical modifications of the existence of a family of real algebraic plane curves with asymptotically maximal numbers of even ovals.
The first secant variety of a projective monomial curve is a threefold with an action by a one-dimensional torus. Its tropicalization is a three-dimensional fan with a one-dimensional lineality space, so the tropical threefold is…
We define the tropical Tevelev degrees, $\mathsf{Tev}_g^{trop}$, as the degree of a natural finite morphism between certain tropical moduli spaces, in analogy to the algebraic case. We develop an explicit combinatorial construction that…
The space of phylogenetic trees arises naturally in tropical geometry as the tropical Grassmannian. Tropical geometry therefore suggests a natural notion of a tropical path between two trees, given by a tropical line segment in the tropical…
There are several interrelated notions of discrete curvature on graphs. Many approaches utilize the optimal transportation metric on its probability simplex or the distance matrix of the graph. In this survey article, we compute formulas…
In this paper, we study tropicalisations of families of curves with a singularity in a fixed point. The tropicalisation of such a family is a linear tropical variety. We describe its maximal dimensional cones using results about linear…
We study the maximal values of Betti numbers of tropical subvarieties of a given dimension and degree in $\mathbb{TP}^n$. We provide a lower estimate for the maximal value of the top Betti number, which naturally depends on the dimension…