Related papers: Polyhedral Covers of Tree Space

To every tree we associate a filtered cochain complex. Its cohomology and the corresponding spectral sequence have clear combinatorial description. If a tree is the Dynkin diagram of a simple plane curve singularity, the graded Euler…

We already saw in [A1] that the space of dynamically marked rational maps can be identified to a subspace of the space of covers between trees of spheres on which there is a notion of convergence that makes it sequentially compact. In the…

In this paper we report on results of our investigation into the algebraic structure supported by the combinatorial geometry of the cyclohedron. Our new graded algebra structures lie between two well known Hopf algebras: the…

A phylogenetic tree is a tree with a fixed set of leaves that has no vertices of degree two. In this paper, we axiomatically define four other discrete structures on the set of leaves. We prove that each of these structures is an equivalent…

Here we introduce researchers in algebraic biology to the exciting new field of cophylogenetics. Cophylogenetics is the study of concomitantly evolving organisms (or genes), such as host and parasite species. Thus the natural objects of…

We define an n-dimensional polytope Pi_n(x), depending on parameters x_i>0, whose combinatorial properties are closely connected with empirical distributions, plane trees, plane partitions, parking functions, and the associahedron. In…

Given a graph G, we construct a simple, convex polytope whose face poset is based on the connected subgraphs of G. This provides a natural generalization of the Stasheff associahedron and the Bott-Taubes cyclohedron. Moreover, we show that…

This paper is a continuation of our previous work in which we defined the notion of a polytope complex and its $K$-theory. In this paper we produce formulas for the delooping of a simplicial polytope complex and the cofiber of a morphism of…

We investigate a family of polytopes introduced by E.M.\ Feichtner, A.\ Postnikov and B.\ Sturmfels, which were named nestohedra. The vertices of these polytopes may intuitively be understood as constructions of hypergraphs. Limit cases in…

We present a sheaf-theoretic construction of shape space -- the space of all shapes. We do this by describing a homotopy sheaf on the poset category of constructible sets, where each set is mapped to its Persistent Homology Transform (PHT).…

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…

In this paper we study the classifying spaces of graph products of simplicial groups and connected Hopf algebras over a field, and show that they can be uniformly treated under the framework of polyhedral products. It turns out that these…

We give a comparative description of the Poisson structures on the moduli spaces of flat connections on real surfaces and holomorphic Poisson structures on the moduli spaces of holomorphic bundles on complex surfaces. The symplectic leaves…

We develop the framework for augmented homotopical algebraic geometry. This is an extension of homotopical algebraic geometry, which itself is a homotopification of classical algebraic geometry. To do so, we define the notion of…

We define a family of convex polytopes called constrainahedra, which index collisions of horizontal and vertical lines. Our construction proceeds by first defining a poset $C(m,n)$ of good rectangular preorders, then proving that $C(m,n)$…

The primary goal of this article is to set up a general theory of coherent cellular approximations of the diagonal for families of polytopes by developing the method introduced by N. Masuda, A. Tonks, H. Thomas and B. Vallette. We apply…

Generalized permutahedra are the polytopes obtained from the permutahedron by changing the edge lengths while preserving the edge directions, possibly identifying vertices along the way. We introduce a "lifting" construction for these…

We show that the toric variety of the permutohedron (=permutohedral space) has the structure of a cocommutative bimonoid in species, with multiplication/comultiplication given by embedding/projecting-onto boundary divisors. In terms of…

In hep-th/0111053, a complete simplicial fan was associated to an arbitrary finite root system. It was conjectured that this fan is the normal fan of a simple convex polytope (a generalized associahedron of the corresponding type). Here we…

Phylogenetic trees are binary nonplanar trees with labelled leaves, and plane oriented recursive trees are planar trees with an increasing labelling. Both families are enumerated by double factorials. A bijection is constructed, using the…