Related papers: String Trees

We present an algorithm for computing a maximum agreement subtree of two unrooted evolutionary trees. It takes O(n^{1.5} log n) time for trees with unbounded degrees, matching the best known time complexity for the rooted case. Our…

There are several common ways to encode a tree as a matrix, such as the adjacency matrix, the Laplacian matrix (that is, the infinitesimal generator of the natural random walk), and the matrix of pairwise distances between leaves. Such…

Ultrametric trees are trees whose leaves lie at the same distance from the root. They are used to model the genealogy of a population of particles co-existing at the same point in time. We show how the boundary of an ultrametric tree, like…

We propose a new arithmetic for non-empty rooted unordered trees simply called trees. After discussing tree representation and enumeration, we define the operations of tree addition, multiplication and stretch, prove their properties, and…

We propose a new linear-size data structure which provides a fast access to all palindromic substrings of a string or a set of strings. This structure inherits some ideas from the construction of both the suffix trie and suffix tree. Using…

Tree structures appear in many fields of the life sciences, including phylogenetics, developmental biology and nucleic acid structures. Trees can be used to represent RNA secondary structures, which directly relate to the function of…

We present a new method to count unrooted maps on the sphere up to orientation-preserving homeomorphisms. The principle, called tree-decomposition, is to deform a map into an arborescent structure whose nodes are occupied by constrained…

Between the leaves and the nodes of a complete binary tree, a separate parent-child-sister hierarchy is employed independent of the parent-child-sister hierarchy used for the rest of the tree. Two different versions of such a local…

We propose a new topological invariant of unlabeled trees of N nodes. The invariant is a set of Nx2 matrices of integers, with sum_j k^{d_{i,j}} and v_i as the matrix elements, where d_{i,j} are the elements of the distance matrix and v_i…

Tree sets are abstract structures that can be used to model various tree-shaped objects in combinatorics. Finite tree sets can be represented by finite graph-theoretical trees. We extend this representation theory to infinite tree sets.…

Let $A$ be a static array storing $n$ elements from a totally ordered set. We present a data structure of optimal size at most $n\log_2(3+2\sqrt{2})+o(n)$ bits that allows us to answer the following queries on $A$ in constant time, without…

Phylogenetic networks are a generalisation of phylogenetic trees that allow for more complex evolutionary histories that include hybridisation-like processes. It is of considerable interest whether a network can be considered `tree-like' or…

We would like to congratulate Lee, Nadler and Wasserman on their contribution to clustering and data reduction methods for high $p$ and low $n$ situations. A composite of clustering and traditional principal components analysis, treelets is…

A 2-tree is a graph that can be formed by starting with a triangle and iterating the operation of making a new vertex adjacent to two adjacent vertices of the existing graph. Leizhen Cai asked in 1995 whether every maximal planar graph…

We give a short and direct proof of a remarkable identity that arises in the enumeration of labeled trees with respect to their indegree sequence, where all edges are oriented from the vertex with lower label towards the vertex with higher…

The paper presents a technique for constructing noisy data structures called a walking tree. We apply it for a Red-Black tree (an implementation of a Self-Balanced Binary Search Tree) and a segment tree. We obtain the same complexity of the…

This paper introduces a data structure, called simplex tree, to represent abstract simplicial complexes of any dimension. All faces of the simplicial complex are explicitly stored in a trie whose nodes are in bijection with the faces of the…

A spanning tree of a graph $G$ is a connected acyclic spanning subgraph of $G$. We consider enumeration of spanning trees when $G$ is a $2$-tree, meaning that $G$ is obtained from one edge by iteratively adding a vertex whose neighborhood…

The task of accumulating a portion of a list of values, whose values may be updated at any time, is widely used throughout various applications in computer science. While it is trivial to accomplish this task without any constraints,…

We study compact straight-line embeddings of trees. We show that perfect binary trees can be embedded optimally: a tree with $n$ nodes can be drawn on a $\sqrt n$ by $\sqrt n$ grid. We also show that testing whether a given binary tree has…