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64
The tropical Grassmannian
, 2003
"... In tropical algebraic geometry, the solution sets of polynomial equations are piecewiselinear. We introduce the tropical variety of a polynomial ideal, and we identify it with a polyhedral subcomplex of the Gröbner fan. The tropical Grassmannian arises in this manner from the ideal of quadratic Plü ..."
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Cited by 107 (13 self)
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In tropical algebraic geometry, the solution sets of polynomial equations are piecewiselinear. We introduce the tropical variety of a polynomial ideal, and we identify it with a polyhedral subcomplex of the Gröbner fan. The tropical Grassmannian arises in this manner from the ideal of quadratic Plücker relations. It is shown to parametrize all tropical linear spaces. Lines in tropical projective space are trees, and their tropical Grassmannian G2,n equals the space of phylogenetic trees studied by Billera, Holmes and Vogtmann. Higher Grassmannians offer a natural generalization of the space of trees. Their facets correspond to binomial initial ideals of the Plücker ideal. The tropical Grassmannian G3,6 is a simplicial complex glued from 1035 tetrahedra.
Tropical geometry and its applications
 the Proceedings of the Madrid ICM
"... Abstract. These notes outline some basic notions of Tropical Geometry and survey some of its applications for problems in classical (real and complex) geometry. To appear in the Proceedings of the Madrid ICM. 1. ..."
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Cited by 60 (3 self)
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Abstract. These notes outline some basic notions of Tropical Geometry and survey some of its applications for problems in classical (real and complex) geometry. To appear in the Proceedings of the Madrid ICM. 1.
Rayleigh processes, real trees, and root growth with regrafting
, 2004
"... Abstract. The real trees form a class of metric spaces that extends the class of trees with edge lengths by allowing behavior such as infinite total edge length and vertices with infinite branching degree. Aldous’s Brownian continuum random tree, the random treelike object naturally associated with ..."
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Cited by 48 (11 self)
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Abstract. The real trees form a class of metric spaces that extends the class of trees with edge lengths by allowing behavior such as infinite total edge length and vertices with infinite branching degree. Aldous’s Brownian continuum random tree, the random treelike object naturally associated with a standard Brownian excursion, may be thought of as a random compact real tree. The continuum random tree is a scaling limit as N → ∞ of both a critical GaltonWatson tree conditioned to have total population size N as well as a uniform random rooted combinatorial tree with N vertices. The Aldous–Broder algorithm is a Markov chain on the space of rooted combinatorial trees with N vertices that has the uniform tree as its stationary distribution. We construct and study a Markov process on the space of all rooted compact real trees that has the continuum random tree as its stationary distribution and arises as the scaling limit as N → ∞ of the Aldous–Broder chain. A key technical ingredient in this work is the use of a pointed Gromov–
The Bergman complex of a matroid and phylogenetic trees
 the Journal of Combinatorial Theory, Series B. arXiv:math.CO/0311370
"... ..."
Tropical convexity
 Documenta Math
"... Abstract. The notions of convexity and convex polytopes are introduced in the setting of tropical geometry. Combinatorial types of tropical polytopes are shown to be in bijection with regular triangulations of products of two simplices. Applications to phylogenetic trees are discussed. 1. ..."
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Cited by 42 (6 self)
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Abstract. The notions of convexity and convex polytopes are introduced in the setting of tropical geometry. Combinatorial types of tropical polytopes are shown to be in bijection with regular triangulations of products of two simplices. Applications to phylogenetic trees are discussed. 1.
Tropical curves, their jacobians and theta functions
, 612
"... Abstract. We study Jacobian varieties for tropical curves. These are real tori equipped with integral affine structure and symmetric bilinear form. We define tropical counterpart of the theta function and establish tropical versions of the AbelJacobi, RiemannRoch and Riemann theta divisor theorems ..."
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Cited by 27 (2 self)
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Abstract. We study Jacobian varieties for tropical curves. These are real tori equipped with integral affine structure and symmetric bilinear form. We define tropical counterpart of the theta function and establish tropical versions of the AbelJacobi, RiemannRoch and Riemann theta divisor theorems. 1.
Subtree prune and regraft: A reversible realtree valued Markov chain
 Ann. Prob
"... Abstract. We use Dirichlet form methods to construct and analyze a reversible Markov process, the stationary distribution of which is the Brownian continuum random tree. This process is inspired by the subtree prune and regraft (SPR) Markov chains that appear in phylogenetic analysis. A key technic ..."
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Cited by 25 (5 self)
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Abstract. We use Dirichlet form methods to construct and analyze a reversible Markov process, the stationary distribution of which is the Brownian continuum random tree. This process is inspired by the subtree prune and regraft (SPR) Markov chains that appear in phylogenetic analysis. A key technical ingredient in this work is the use of a novel Gromov– Hausdorff type distance to metrize the space whose elements are compact real trees equipped with a probability measure. Also, the investigation of the Dirichlet form hinges on a new path decomposition of the Brownian excursion. 1.
Analysis of systematic scan Metropolis algorithms using Iwahori–Hecke algebra techniques
 Michigan Math. J
, 2000
"... Abstract. We give the first analysis of a systematic scan version of the Metropolis algorithm. Our examples include generating random elements of a Coxeter group with probability determined by the length function. The analysis is based on interpreting Metropolis walks in terms of the multiplication ..."
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Cited by 22 (7 self)
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Abstract. We give the first analysis of a systematic scan version of the Metropolis algorithm. Our examples include generating random elements of a Coxeter group with probability determined by the length function. The analysis is based on interpreting Metropolis walks in terms of the multiplication in the IwahoriHecke algebra. 1.
Tropical fans and the moduli spaces of tropical curves
 Compos. Math
, 2009
"... ABSTRACT. We give a rigorous definition of tropical fans (the “local building blocks for tropical varieties”) and their morphisms. For such a morphism of tropical fans of the same dimension we show that the number of inverse images (counted with suitable tropical multiplicities) of a point in the ta ..."
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Cited by 19 (2 self)
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ABSTRACT. We give a rigorous definition of tropical fans (the “local building blocks for tropical varieties”) and their morphisms. For such a morphism of tropical fans of the same dimension we show that the number of inverse images (counted with suitable tropical multiplicities) of a point in the target does not depend on the chosen point — a statement that can be viewed as the beginning of a tropical intersection theory. As an application we consider the moduli spaces of rational tropical curves (both abstract and in some Rr) together with the evaluation and forgetful morphisms. Using our results this gives new, easy, and unified proofs of various tropical independence statements, e.g. of the fact that the numbers of rational tropical curves (in any Rr) through given points are independent of the points. 1.
The geometry and topology of reconfiguration
 Advances in Applied Mathematics
, 2004
"... ABSTRACT. A number of reconfiguration problems in robotics, biology, computer science, combinatorics, and group theory coordinate local rules to effect global changes in system states. We define for any such reconfigurable system a cubical complex — the state complex — which coordinates independent ..."
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Cited by 16 (2 self)
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ABSTRACT. A number of reconfiguration problems in robotics, biology, computer science, combinatorics, and group theory coordinate local rules to effect global changes in system states. We define for any such reconfigurable system a cubical complex — the state complex — which coordinates independent local moves. We prove classification and realization theorems for state complexes, using CAT(0) geometry as the primary tool. We also classify the topology of spaces of optimal reconfiguration paths using techniques from CAT(0) geometry. 1.