Related papers: On the locality of the Pr\"ufer code
Pr\"{u}fer codes provide an encoding scheme for representing a vertex-labeled tree on $n$ vertices with a string of length $n-2$. Indeed, two labeled trees are isomorphic if and only if their Pr\"{u}fer codes are identical, and this…
The last decade brought a significant increase in the amount of data and a variety of new inference methods for reconstructing the detailed evolutionary history of various cancers. This brings the need of designing efficient procedures for…
In this article, we propose tree edit distance with variables, which is an extension of the tree edit distance to handle trees with variables and has a potential application to measuring the similarity between mathematical formulas,…
We present a graph theoretical approach to the configurational statistics of random tree-like objects, such as randomly branching polymers. In particular, for ideal trees we show that Pr\"ufer labelling provides: (i) direct access to the…
The problem of comparing trees representing the evolutionary histories of cancerous tumors has turned out to be crucial, since there is a variety of different methods which typically infer multiple possible trees. A departure from the…
We study two related probabilistic models of permutations and trees biased by their number of descents. Here, a descent in a permutation $\sigma$ is a pair of consecutive elements $\sigma(i), \sigma(i+1)$ such that $\sigma(i) >…
Let $L$ be a finite sequence of natural numbers. In Woryna (2017,2018), we derived some interesting properties for the ratio $\rho_{n,L}=|PR_n(L)|/|UD_n(L)|$, where $UD_n(L)$ denotes the set of all codes over an $n$-letter alphabet and with…
We give a simple characterisation of the distribution of the independence number, and equivalently the matching number, of a random tree on $n$ labelled vertices chosen uniformly among the $n^{n-2}$ such trees: Roll an $n$-sided die…
We present here a new and universal approach for the study of random and/or trees, unifying in one framework many different models, including some novel ones not yet understood in the literature. An and/or tree is a Boolean expression…
In graph theory, a tree is one of the more popular families of graphs with a wide range of applications in computer science as well as many other related fields. While there are several distance measures over the set of all trees, we…
Motivated by online recommendation systems, we study a family of random forests. The vertices of the forest are labeled by integers. Each non-positive integer $i\le 0$ is the root of a tree. Vertices labeled by positive integers $n \ge 1$…
Consider the following partial "sorting algorithm" on permutations: take the first entry of the permutation in one-line notation and insert it into the position of its own value. Continue until the first entry is 1. This process imposes a…
An important problem in geometric computing is defining and computing similarity between two geometric shapes, e.g. point sets, curves and surfaces, etc. Important geometric and topological information of many shapes can be captured by…
We derive the exact partition function for a discrete model of random trees embedded in a one-dimensional space. These trees have vertices labeled by integers representing their position in the target space, with the SOS constraint that…
Tree rearrangement operations typically induce a metric on the space of phylogenetic trees. One important property of these metrics is the size of the neighbourhood, that is, the number of trees exactly one operation from a given tree. We…
A {\em leader} of a tree $T$ on $[n]$ is a vertex which has no smaller descendants in $T$. Gessel and Seo showed $$\sum_{T \in \mathcal{T}_n}u^\text{(# of leaders in $T$)} c^\text{(degree of 1 in $T$)}=u P_{n-1}(1,u,cu),$$ which is a…
This note presents an encoding and a decoding algorithms for a forest of (labelled) rooted uniform hypertrees and hypercycles in linear time, by using as few as $n - 2$ integers in the range $[1,n]$. It is a simple extension of the…
Motivated by the study of random temporal networks, we introduce a class of random trees that we coin \emph{uniform temporal trees}. A uniform temporal tree is obtained by assigning independent uniform $[0,1]$ labels to the edges of a…
We consider a sequence $\mathbf{T} = (\mathcal{T}_n : n \in \mathbb{N}^+)$ of trees $\mathcal{T}_n$ where, for some $\Delta \in \mathbb{N}^+$ every $\mathcal{T}_n$ has height at most $\Delta$ and as $n \to \infty$ the minimal number of…
The mutational heterogeneity of tumours can be described with a tree representing the evolutionary history of the tumour. With noisy sequencing data there may be uncertainty in the inferred tree structure, while we may also wish to study…