Related papers: On the locality of the Pr\"ufer code
A merge tree is a fundamental topological structure used to capture the sub-level set (and similarly, super-level set) topology in scalar data analysis. The interleaving distance is a theoretically sound, stable metric for comparing merge…
Sorting is a foundational problem in computer science that is typically employed on sequences or total orders. More recently, a more general form of sorting on partially ordered sets (or posets), where some pairs of elements are…
The early development of a zygote can be mathematically described by a developmental tree. To compare developmental trees of different species, we need to define distances on trees. If children cells after a division are not…
Recently, much attention has been given to understanding recombination events along a chromosome in a variety of field. For instance, many population genetics problems are limited by the inaccuracy of inferred evolutionary histories of…
As well known the rotation distance D(S,T) between two binary trees S, T of n vertices is the minimum number of rotations of pairs of vertices to transform S into T. We introduce the new operation of chain rotation on a tree, involving two…
We generalize the results from [X.-D. Zhang, X.-P. Lv, Y.-H. Chen, \textit{Ordering trees by the Laplacian coefficients}, Linear Algebra Appl. (2009), doi:10.1016/j.laa.2009.04.018] on the partial ordering of trees with given diameter. For…
Rotation distance between rooted binary trees measures the number of simple operations it takes to transform one tree into another. There are no known polynomial-time algorithms for computing rotation distance. We give an efficient,…
Permutation codes of length $n$ and distance $d$ is a set of permutations on $n$ symbols, where the distance between any two elements in the set is at least $d$. Subgroup permutation codes are permutation codes with the property that the…
The subject of pattern avoiding permutations has its roots in computer science, namely in the problem of sorting a permutation through a stack. A formula for the number of permutations of length n that can be sorted by passing it twice…
How robust is the natural genetic code with respect to mistranslation errors? It has long been known that the genetic code is very efficient in limiting the effect of point mutation. A misread codon will commonly code either for the same…
We consider a uniform spanning tree in a $\delta$-square grid approximation of a planar domain $\Omega$. For given integer $n\ge 2$, we condition the tree on the following $n$-arm event: we pick $n$ branches, emanating from $n$ points…
The input to the token swapping problem is a graph with vertices $v_1, v_2, \ldots, v_n$, and $n$ tokens with labels $1, 2, \ldots, n$, one on each vertex. The goal is to get token $i$ to vertex $v_i$ for all $i= 1, \ldots, n$ using a…
Estimating phylogenetic trees, which depict the relationships between different species, from aligned sequence data (such as DNA, RNA, or proteins) is one of the main aims of evolutionary biology. However, tree reconstruction criteria like…
We describe an algorithm computing an optimal prefix free code for $n$ unsorted positive weights in time within $O(n(1+\lg \alpha))\subseteq O(n\lg n)$, where the alternation $\alpha\in[1..n-1]$ measures the amount of sorting required by…
In this paper, we introduce an achievability bound on the frame error rate of random tree code ensembles under a sequential decoding algorithm with a hard computational limit and consider the optimization of the random tree code ensembles…
Two trees in the boundary of outer space are said to be \emph{primitive-equivalent} whenever their translation length functions are equal in restriction to the set of primitive elements of $F_N$. We give an explicit description of this…
We investigate the limiting behavior of random tree growth in preferential attachment models. The tree stems from a root, and we add vertices to the system one-by-one at random, according to a rule which depends on the degree distribution…
The Hausdorff distance is a relatively new measure of similarity of graphs. The notion of the Hausdorff distance considers a special kind of a common subgraph of the compared graphs and depends on the structural properties outside of the…
Let's denote a complete $m$-ary rooted tree graph of height $n$ as $G$. In scope of this paper we prove the certain relations between the properties of $G$ and the expectation and variance of the distribution of lengths of strings,…
We consider distance labeling schemes for trees: given a tree with $n$ nodes, label the nodes with binary strings such that, given the labels of any two nodes, one can determine, by looking only at the labels, the distance in the tree…