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Phylogenetic trees are a central tool in understanding evolution. They are typically inferred from sequence data, and capture evolutionary relationships through time. It is essential to be able to compare trees from different data sources…

Populations and Evolution · Quantitative Biology 2017-10-31 Michelle Kendall , Caroline Colijn

In this paper, we shall construct a bijection between rook placements on double staircases (introduced by Josuat-Verg\`es in 2017) and increasing binary trees. We introduce two subclasses of rook placements on double staircases, which we…

Combinatorics · Mathematics 2023-01-16 Bishal Deb

As a unification of increasing trees and plane trees, the weakly increasing trees labeled by a multiset was introduced by Lin-Ma-Ma-Zhou in 2021. Motived by some symmetries in plane trees proved recently by Dong, Du, Ji and Zhang, we…

Combinatorics · Mathematics 2025-02-14 Yang Li , Zhicong Lin

In this article, Temperley's bijection between spanning trees of the square grid on the one hand, and perfect matchings (also known as dimer coverings) of the square grid on the other, is extended to the setting of general planar directed…

Combinatorics · Mathematics 2007-05-23 Richard W. Kenyon , James G. Propp , David B. Wilson

Motivated by a conjecture of Gy\'arf\'as, recently B\"ottcher, Hladk\'y, Piguet, and Taraz showed that every collection $T_1,\dots,T_t$ of trees on $n$ vertices with $\sum_{i=1}^te(T_i)\leq \binom{n}{2}$ and with bounded maximum degree, can…

Combinatorics · Mathematics 2016-04-20 Silvia Messuti , Vojtěch Rödl , Mathias Schacht

We introduce a generalization of Smirnov words in the context of labeled binary trees, which we call Smirnov trees. We study the generating function for ascent-descent statistics on Smirnov trees and establish that it is $e$-positive, which…

Combinatorics · Mathematics 2019-01-30 Matjaž Konvalinka , Vasu Tewari

We present a new formulation of the loop-tree duality theorem for higher loop diagrams valid both for massless and massive cases. $l$-loop integrals are expressed as weighted sum of trees obtained from cutting $l$ internal propagators of…

High Energy Physics - Phenomenology · Physics 2019-11-22 Robert Runkel , Zoltán Szőr , Juan Pablo Vesga , Stefan Weinzierl

The tangent number $T_{2n+1}$ is equal to the number of increasing labelled complete binary trees with $2n+1$ vertices. This combinatorial interpretation immediately proves that $T_{2n+1}$ is divisible by $2^n$. However, a stronger…

Combinatorics · Mathematics 2018-02-28 Guo-Niu Han , Jing-Yi Liu

A {\it tiered graph} $G=(V,E)$ with $m $ tiers is a simple graph with $V\subseteq \brk{n}$, where $\brk{n}=\{1,2,\cdots,n\}$, and with a surjective map $t$ from $V$ to $\brk{m}$ such that if $v$ is a vertex adjacent to $v'$ in $G$ with…

Combinatorics · Mathematics 2022-09-28 Fengming Dong , Sherry H. F. Yan

Arborified multiple zeta values are a generalization of multiple zeta values associated with rooted trees. There are two types of decorated rooted trees, corresponding respectively to the series and the integral expressions. Manchon…

Number Theory · Mathematics 2025-08-29 Ku-Yu Fan

An edge-ordered graph is a graph with a total ordering of its edges. A path $P=v_1v_2\ldots v_k$ in an edge-ordered graph is called increasing if $(v_iv_{i+1}) > (v_{i+1}v_{i+2})$ for all $i = 1,\ldots,k-2$; it is called decreasing if…

Combinatorics · Mathematics 2020-01-22 Frank Duque , Ruy Fabila-Monroy , Carlos Hidalgo-Toscano , Pablo Pérez-Lantero

Let $T$ be a tree rooted at $r$. Two vertices of $T$ are related if one is a descendant of the other; otherwise, they are unrelated. Two subsets $A$ and $B$ of $V(T)$ are unrelated if, for any $a\in A$ and $b\in B$, $a$ and $b$ are…

Combinatorics · Mathematics 2015-07-08 Zi-Xia Song , Talon Ward , Alexander York

Phylogenetic tree shapes capture fundamental signatures of evolution. We consider ``ranked'' tree shapes, which are equipped with a total order on the internal nodes compatible with the tree graph. Recent work has established an elegant…

Populations and Evolution · Quantitative Biology 2026-03-10 Chris Jennings-Shaffer , Ziyue , Chen , Julia A Palacios , Frederick A Matsen

In a first part, we formalize the construction of combinatorial Hopf algebras from plactic-like monoids using polynomial realizations. Thank to this construction we reveal a lattice structure on those combinatorial Hopf algebras. As an…

Combinatorics · Mathematics 2013-03-25 Jean-Baptiste Priez

Let T be a weighted tree with n leaves. Let D_{i,j} be the distance between the leaves i and j. Let D_{i,j,k}= (D_{i,j} + D_{j,k} +D_{i,k})/2. We will call such numbers "triple weights" of the tree. In this paper, we give a…

Algebraic Geometry · Mathematics 2011-04-25 Elena Rubei

This paper provides the generating series for the embedding of tree-like graphs of arbitrary number of vertices, accourding to their genus. It applies and extends the techniques of Chan, where it was used to give an alternate proof of the…

Combinatorics · Mathematics 2017-02-10 Aaron Chun Shing Chan

In this paper we enumerate and give bijections for the following four sets of vertices among rooted ordered trees of a fixed size: (i) first-children of degree $k$ at level $\ell$, (ii) non-first-children of degree $k$ at level $\ell-1$,…

Combinatorics · Mathematics 2022-03-22 Sen-Peng Eu , Seunghyun Seo , Heesung Shin

The aim of this chapter is to provide an adequate graph theoretic framework for the description of periodic bifurcations which have recently been discovered in descendant trees of finite p-groups. The graph theoretic concepts of rooted…

Group Theory · Mathematics 2017-01-30 Daniel C. Mayer

Cayley's formula states that the number of labelled trees on $n$ vertices is $n^{n-2}$, and many of the current proofs involve complex structures or rigorous computation. We present a bijective proof of the formula by providing an…

Combinatorics · Mathematics 2014-09-08 Steven Hao , Andrew He , Ray Li , Scott Wu

Arboreal networks are a generalization of rooted trees, defined by keeping the tree-like structure, but dropping the requirement for a single root. Just as the class of cographs is precisely the class of undirected graphs that can be…

Combinatorics · Mathematics 2025-02-13 Guillaume E. Scholz