相关论文: Tropical Grassmannian and Tropical Linear Varietie…
Phylogenetic trees provide a fundamental representation of evolutionary relationships, yet the combinatorial explosion of possible tree topologies renders inference computationally challenging. Classical approaches to characterizing tree…
We launch the study of the tropicalization of the symplectic Grassmannian, that is, the space of all linear subspaces that are isotropic with respect to a fixed symplectic form. We formulate tropical analogues of several equivalent…
We revisit the representation theory in type $A$used previously to establish that the dissimilarity vectors of phylogenetic trees are points on the tropical Grassmannian variety. We use a different version of this construction to show that…
In tropical algebraic geometry, the solution sets of polynomial equations are piecewise-linear. We introduce the tropical variety of a polynomial ideal, and we identify it with a polyhedral subcomplex of the Grobner fan. The tropical…
We show that the tropical projective Grassmannian of planes is homeomorphic to a closed subset of the analytic Grassmannian in Berkovich's sense by constructing a continuous section to the tropicalization map. Our main tool is an explicit…
We define tropical analogues of the notions of linear space and Plucker coordinate and study their combinatorics. We introduce tropical analogues of intersection and dualization and define a tropical linear space built by repeated…
We study the behavior of phylogenetic tree shapes in the tropical geometric interpretation of tree space. Tree shapes are formally referred to as tree topologies; a tree topology can also be thought of as a tree combinatorial type, which is…
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…
We study linear degenerations of flag varieties from the point of view of tropical geometry. We define the linear degenerate flag Dressian and prove a correspondence between: $(a)$ points in the linear degenerate flag Dressian, $(b)$ linear…
In this paper, we investigate tropical secant varieties of ordinary linear spaces. These correspond to the log-limit sets of ordinary toric varieties; we show that their interesting parts are combinatorially isomorphic to a certain natural…
Phylogenomics is a new field which applies to tools in phylogenetics to genome data. Due to a new technology and increasing amount of data, we face new challenges to analyze them over a space of phylogenetic trees. Because a space of…
In 2004 Pachter and Speyer introduced the higher dissimilarity maps for phylogenetic trees and asked two important questions about their relation to the tropical Grassmannian. Multiple authors, using independent methods, answered…
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.…
We study representations of tropical linear spaces as intersections of tropical hyperplanes of circuits. For several classes of matroids, we describe minimal tropical bases. We also show that every realizable tropical linear space has a…
The tropical Grassmannian parameterizes tropicalizations of linear spaces, while the Dressian parameterizes all planes in $\TP^{n-1}$. We study these parameter spaces and we compute them explicitly for $n \leq 7$. Planes are identified with…
We study a notion of tropical linear series on metric graphs that combines two essential properties of tropicalizations of linear series on algebraic curves: the Baker-Norine rank and the independence rank. Our main results relate the local…
In classical geometry, a linear space is a space that is closed under linear combinations. In tropical geometry, it has long been a consensus that tropical varieties defined by valuated matroids are the tropical analogue of linear spaces.…
Tropicalization is a procedure for associating a polyhedral complex in Euclidean space to a subvariety of an algebraic torus. We study the question of which graphs arise from tropicalizing algebraic curves. By using Baker's specialization…
We explicitly describe the tropicalization of a type C cluster variety by identifying it with the space of axially symmetric phylogenetic trees. We also study the signed tropicalizations of this cluster variety, realizing them as subfans of…
We study the tropicalizations of Severi varieties, which we call tropical Severi varieties. In this paper, we give a partial answer to the following question, ``describe the tropical Severi varieties explicitly.'' We obtain a description of…