Related papers: On Path diagrams and Stirling permutations

Distance-based approaches in phylogenetics such as Neighbor-Joining are a fast and popular approach for building trees. These methods take pairs of sequences from them construct a value that, in expectation, is additive under a stochastic…

For a labeled tree on the vertex set $\set{1,2,\ldots,n}$, the local direction of each edge $(i\,j)$ is from $i$ to $j$ if $i<j$. For a rooted tree, there is also a natural global direction of edges towards the root. The number of edges…

We prove a new formula for the generating function of multitype Cayley trees counted according to their degree distribution. Using this formula we recover and extend several enumerative results about trees. In particular, we extend some…

This paper investigates two involutions on binary trees. One is the mirror symmetry of binary trees which combined with the classical bijection $\varphi$ between binary trees and plane trees answers an open problem posed by Bai and Chen.…

The goal of this monograph is to study the indicator function for a set of permutations mapping one finite sequence of positive integers to another from a representation theoretic, combinatorial and probabilistic perspective. The degree of…

P.L. Erdos and L.A. Szekely [Adv. Appl. Math. 10(1989), 488-496] gave a bijection between rooted semilabeled trees and set partitions. L.H. Harper's results [Ann. Math. Stat. 38(1967), 410-414] on the asymptotic normality of the Stirling…

In this article, we construct a generalization of the Blum-Fran\c{c}ois Beta-splitting model for evolutionary trees, which was itself inspired by Aldous' Beta-splitting model on cladograms. The novelty of our approach allows for asymmetric…

We provide new Schmidt-type results through an investigation of two bijections, which are results involving partitions with parts counted only at given indices. Mork's bijection, the first of these, was originally given as a proof of…

Let $w$ be a word in alphabet $\{x,D\}$ with $m$ $x$'s and $n$ $D$'s. Interpreting "$x$" as multiplication by $x$, and "$D$" as differentiation with respect to $x$, the identity $wf(x) = x^{m-n}\sum_k S_w(k) x^k D^k f(x)$, valid for any…

By decomposing the random walk path, we construct a multitype branching process with immigration in random environment for corresponding random walk with bounded jumps in random environment. Then we give two applications of the branching…

For a model of molecular evolution to be useful for phylogenetic inference, the topology of evolutionary trees must be identifiable. That is, from a joint distribution the model predicts, it must be possible to recover the tree parameter.…

This paper is devoted to a systematic study of a class of binary trees encoding the structure of rational numbers both from arithmetic and dynamical point of view. The paper is divided into two parts. The first one is a critical review of…

Recall that a Stirling permutation is a permutation on the multiset $\{1,1,2,2,\ldots,n,n\}$ such that any numbers appearing between repeated values of $i$ must be greater than $i$. We call a Stirling permutation ``flattened'' if the…

We study the distribution and the popularity of some patterns in $k$-ary faro words, i.e. words over the alphabet $\{1, 2, \ldots, k\}$ obtained by interlacing the letters of two nondecreasing words of lengths differing by at most one. We…

In this paper, several variants of the ascent-plateau statistic are introduced, including flag ascent-plateau, double ascent and descent-plateau. We first study the flag ascent-plateau statistic on Stirling permutations by using…

In a deterministic or random tree, a notion of ancestral diversity can be defined as follows. Sample independently $n$ groups of $k$ leaves and count the number $N_n(k)$ of distinct most recent common ancestors of each of the groups. As $n$…

We study random typical minimal factorizations of the $n$-cycle into transpositions, which are factorizations of $(1, \ldots,n)$ as a product of $n-1$ transpositions. By viewing transpositions as chords of the unit disk and by reading them…

We apply the theory of markov random fields on trees to derive a phase transition in the number of samples needed in order to reconstruct phylogenies. We consider the Cavender-Farris-Neyman model of evolution on trees, where all the inner…

Pondering upon the grammatical labeling of 0-1-2 increasing plane trees, we come to the realization that the grammatical labels play a role as records of chopped off leaves of the original increasing binary trees. While such an…

Set partitions avoiding $k$-crossing and $k$-nesting have been extensively studied from the aspects of both combinatorics and mathematical biology. By using the generating tree technique, the obstinate kernel method and Zeilberger's…