Related papers: Combinatorial species and graph enumeration
Construction of phylogenetic trees and networks for extant species from their characters represents one of the key problems in phylogenomics. While solution to this problem is not always uniquely defined and there exist multiple methods for…
Using a notation of corner between edges when graph has a fixed rotation, i.e. cyclical order of edges around vertices, we define combinatorial objects - combinatorial maps as pairs of permutations, one for vertices and one for faces.…
Cayley's formula is a fundamental result in combinatorics that counts the number of labeled trees on n vertices. While existing proofs use approaches such as Prufer sequences and the Matrix-Tree Theorem, we give a combinatorial proof that…
Combinatorial Exploration is a new domain-agnostic algorithmic framework to automatically and rigorously study the structure of combinatorial objects and derive their counting sequences and generating functions. We describe how it works and…
In mathematical phylogenetics, the time-consistent galled trees provide a simple class of rooted binary network structures that can be used to represent a variety of different biological phenomena. We study the enumerative combinatorics of…
The aim of the article is to understand the combinatorics of snake graphs by means of linear algebra. In particular, we apply Kasteleyn's and Temperley--Fisher's ideas about spectral properties of weighted adjacency matrices of planar…
This is a book on higher-categorical diagrams, including pasting diagrams. It aims to provide a thorough and modern reference on the subject, collecting, revisiting and expanding results scattered across the literature, informed by recent…
We study an abstract notion of tree structure which lies at the common core of various tree-like discrete structures commonly used in combinatorics: trees in graphs, order trees, nested subsets of a set, tree-decompositions of graphs and…
This paper introduces a new combinatorial framework for modeling the growth of binary trees through a discrete evolution process that incorporates a growing rule and an extinction rule. Building upon the theory of increasingly labeled…
We consider systems of recursively defined combinatorial structures. We give algorithms checking that these systems are well founded, computing generating series and providing numerical values. Our framework is an articulation of the…
Graph-based signal processing techniques have become essential for handling data in non-Euclidean spaces. However, there is a growing awareness that these graph models might need to be expanded into `higher-order' domains to effectively…
The major challenge in designing a discriminative learning algorithm for predicting structured data is to address the computational issues arising from the exponential size of the output space. Existing algorithms make different assumptions…
For a flexible labeling of a graph, it is possible to construct infinitely many non-equivalent realizations keeping the distances of connected points constant. We give a combinatorial characterization of graphs that have flexible labelings.…
The best merge problem in industrial data science generates instances where disparate data sources place incompatible relational structures on the same set $V$ of objects. Graph vertex labelling data may include (1) missing or erroneous…
Bipartite graphs are a fundamental concept in graph theory with diverse applications. A graph is bipartite iff it contains no odd cycles, a characteristic that has many implications in diverse fields ranging from matching problems to the…
In this article, we extend several algebraic graph analysis methods to bipartite networks. In various areas of science, engineering and commerce, many types of information can be represented as networks, and thus the discipline of network…
A tanglegram is a pair of binary trees with the same set of leaves. Unlabeled tanglegrams were counted recently by Billey, Konvalinka, and Matsen, who also proposed the problem of counting several variations of unlabeled tanglegrams…
To a given nonsingular triangular matrix A with entries from a ring, we associate a weighted bipartite graph G(A) and give a combinatorial description of the inverse of A by employing paths in G(A). Under a certain condition, nonsingular…
A biased graph consists of a graph $G$ together with a collection of distinguished cycles of $G$, called balanced cycles, with the property that no theta subgraph contains exactly two balanced cycles. Perhaps the most natural biased graphs…
We study a class of combinatorial objects that we call "decorated trees". These consist of vertices, arrows and edges, where each edge is decorated by two integers (one near each of its endpoints), each arrow is decorated by an integer, and…