Integrability of graph combinatorics via random walks and heaps of dimers

We investigate the integrability of the discrete non-linear equation governing the dependence on geodesic distance of planar graphs with inner vertices of even valences. This equation follows from a bijection between graphs and blossom trees and is expressed in terms of generating functions for random walks. We construct explicitly an infinite set of conserved quantities for this equation, also involving suitable combinations of random walk generating functions. The proof of their conservation, i.e. their eventual independence on the geodesic distance, relies on the connection between random walks and heaps of dimers. The values of the conserved quantities are identified with generating functions for graphs with fixed numbers of external legs. Alternative equivalent choices for the set of conserved quantities are also discussed and some applications are presented.Comment: 38 pages, 15 figures, uses epsf, lanlmac and hyperbasic

Tropical Geometry of Phylogenetic Tree Space: A Statistical Perspective

Phylogenetic trees are the fundamental mathematical representation of evolutionary processes in biology. As data objects, they are characterized by the challenges associated with "big data," as well as the complication that their discrete geometric structure results in a non-Euclidean phylogenetic tree space, which poses computational and statistical limitations. We propose and study a novel framework to study sets of phylogenetic trees based on tropical geometry. In particular, we focus on characterizing our framework for statistical analyses of evolutionary biological processes represented by phylogenetic trees. Our setting exhibits analytic, geometric, and topological properties that are desirable for theoretical studies in probability and statistics, as well as increased computational efficiency over the current state-of-the-art. We demonstrate our approach on seasonal influenza data.Comment: 28 pages, 5 figures, 1 tabl

Improved Compact Visibility Representation of Planar Graph via Schnyder's Realizer

Let $G$ be an $n$-node planar graph. In a visibility representation of $G$, each node of $G$ is represented by a horizontal line segment such that the line segments representing any two adjacent nodes of $G$ are vertically visible to each other. In the present paper we give the best known compact visibility representation of $G$. Given a canonical ordering of the triangulated $G$, our algorithm draws the graph incrementally in a greedy manner. We show that one of three canonical orderings obtained from Schnyder's realizer for the triangulated $G$ yields a visibility representation of $G$ no wider than $\frac{22n-40}{15}$. Our easy-to-implement O(n)-time algorithm bypasses the complicated subroutines for four-connected components and four-block trees required by the best previously known algorithm of Kant. Our result provides a negative answer to Kant's open question about whether $\frac{3n-6}{2}$ is a worst-case lower bound on the required width. Also, if $G$ has no degree-three (respectively, degree-five) internal node, then our visibility representation for $G$ is no wider than $\frac{4n-9}{3}$ (respectively, $\frac{4n-7}{3}$). Moreover, if $G$ is four-connected, then our visibility representation for $G$ is no wider than $n-1$, matching the best known result of Kant and He. As a by-product, we obtain a much simpler proof for a corollary of Wagner's Theorem on realizers, due to Bonichon, Sa\"{e}c, and Mosbah.Comment: 11 pages, 6 figures, the preliminary version of this paper is to appear in Proceedings of the 20th Annual Symposium on Theoretical Aspects of Computer Science (STACS), Berlin, Germany, 200

The Boardman-Vogt resolution of operads in monoidal model categories

We extend the W-construction of Boardman and Vogt to operads of an arbitrary monoidal model category with suitable interval, and show that it provides a cofibrant resolution for well-pointed sigma-cofibrant operads. The standard simplicial resolution of Godement as well as the cobar-bar chain resolution are shown to be particular instances of this generalised W-construction

A space-averaged model of branched structures

Many biological systems and artificial structures are ramified, and present a high geometric complexity. In this work, we propose a space-averaged model of branched systems for conservation laws. From a one-dimensional description of the system, we show that the space-averaged problem is also one-dimensional, represented by characteristic curves, defined as streamlines of the space-averaged branch directions. The geometric complexity is then captured firstly by the characteristic curves, and secondly by an additional forcing term in the equations. This model is then applied to mass balance in a pipe network and momentum balance in a tree under wind loading.Comment: 10 pages, 11 figure

Join-Reachability Problems in Directed Graphs

For a given collection G of directed graphs we define the join-reachability graph of G, denoted by J(G), as the directed graph that, for any pair of vertices a and b, contains a path from a to b if and only if such a path exists in all graphs of G. Our goal is to compute an efficient representation of J(G). In particular, we consider two versions of this problem. In the explicit version we wish to construct the smallest join-reachability graph for G. In the implicit version we wish to build an efficient data structure (in terms of space and query time) such that we can report fast the set of vertices that reach a query vertex in all graphs of G. This problem is related to the well-studied reachability problem and is motivated by emerging applications of graph-structured databases and graph algorithms. We consider the construction of join-reachability structures for two graphs and develop techniques that can be applied to both the explicit and the implicit problem. First we present optimal and near-optimal structures for paths and trees. Then, based on these results, we provide efficient structures for planar graphs and general directed graphs

BSP-fields: An Exact Representation of Polygonal Objects by Differentiable Scalar Fields Based on Binary Space Partitioning

The problem considered in this work is to find a dimension independent algorithm for the generation of signed scalar fields exactly representing polygonal objects and satisfying the following requirements: the defining real function takes zero value exactly at the polygonal object boundary; no extra zero-value isosurfaces should be generated; C1 continuity of the function in the entire domain. The proposed algorithms are based on the binary space partitioning (BSP) of the object by the planes passing through the polygonal faces and are independent of the object genus, the number of disjoint components, and holes in the initial polygonal mesh. Several extensions to the basic algorithm are proposed to satisfy the selected optimization criteria. The generated BSP-fields allow for applying techniques of the function-based modeling to already existing legacy objects from CAD and computer animation areas, which is illustrated by several examples