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Most of major algorithms for phylogenetic tree reconstruction assume that sequences in the analyzed set either do not have any offspring, or that parent sequences can maximally mutate into just two descendants. The graph resulting from such…

Populations and Evolution · Quantitative Biology 2013-10-09 Piotr Plonski , Jan P. Radomski

Consider a collection of weighted subsets of a ground set N. Given a query subset Q of N, how fast can one (1) find the weighted sum over all subsets of Q, and (2) sample a subset of Q proportionally to the weights? We present a tree-based…

Data Structures and Algorithms · Computer Science 2013-09-27 Teppo Niinimaki , Mikko Koivisto

Pick a sequence of uniform points on the $d$-dimensional sphere. Then, link the $n$th point to its closest one that arrives in the past. This constructs a labelled tree called the nearest neighbour tree on the $d$-dimensional sphere. These…

Probability · Mathematics 2023-02-22 Jérôme Casse

The use of machine learning algorithms in finance, medicine, and criminal justice can deeply impact human lives. As a consequence, research into interpretable machine learning has rapidly grown in an attempt to better control and fix…

Machine Learning · Computer Science 2021-02-02 Thibaut Vidal , Toni Pacheco , Maximilian Schiffer

We introduce an algorithm for the uniform generation of infinite traces, i.e., infinite words up to commutation of some letters. The algorithm outputs on-the-fly approximations of a theoretical infinite trace, the latter being distributed…

Combinatorics · Mathematics 2025-05-27 Samy Abbes , Vincent Jugé

Consider a rooted tree $T$ with leaf-set $[n]$, and with all non-leaf vertices having out-degree $2$, at least. A rooted tree $\mathcal T$ with leaf-set $S\subset [n]$ is induced by $S$ in $T$ if $\mathcal T$ is the lowest common ancestor…

Probability · Mathematics 2021-08-12 Boris Pittel

General graphs are difficult for learning due to their irregular structures. Existing works employ message passing along graph edges to extract local patterns using customized graph kernels, but few of them are effective for the integration…

Computer Vision and Pattern Recognition · Computer Science 2020-07-23 Yecheng Lyu , Ming Li , Xinming Huang , Ulkuhan Guler , Patrick Schaumont , Ziming Zhang

In our previous work, we introduced the random $k$-cut number for rooted graphs. In this paper, we show that the distribution of the $k$-cut number in complete binary trees of size $n$, after rescaling, is asymptotically a periodic function…

Probability · Mathematics 2020-04-21 Xing Shi Cai , Cecilia Holmgren

We present a method for the construction of ensembles of random networks that consist of a single connected component with a given degree distribution. This approach extends the construction toolbox of random networks beyond the…

Disordered Systems and Neural Networks · Physics 2019-04-19 Ido Tishby , Ofer Biham , Eytan Katzav , Reimer Kühn

For one-dimensional growth processes we consider the distribution of the height above a given point of the substrate and study its scale invariance in the limit of large times. We argue that for self-similar growth from a single seed the…

Statistical Mechanics · Physics 2009-10-31 Michael Praehofer , Herbert Spohn

Industrial robots can solve very complex tasks in controlled environments, but modern applications require robots able to operate in unpredictable surroundings as well. An increasingly popular reactive policy architecture in robotics is…

Robotics · Computer Science 2021-03-17 Jonathan Styrud , Matteo Iovino , Mikael Norrlöf , Mårten Björkman , Christian Smith

This extended abstract is dedicated to the analysis of the height of non-plane unlabelled rooted binary trees. The height of such a tree chosen uniformly among those of size $n$ is proved to have a limiting theta distribution, both in a…

Combinatorics · Mathematics 2008-07-16 Nicolas Broutin , Philippe Flajolet

Consider a class of decomposable combinatorial structures, using different types of atoms $\Atoms = \{\At_1,\ldots ,\At_{|{\Atoms}|}\}$. We address the random generation of such structures with respect to a size $n$ and a targeted…

Discrete Mathematics · Computer Science 2010-12-01 Alain Denise , Yann Ponty , Michel Termier

We provide the necessary and sufficient conditions for the edge-binomials of the tree forming a $d$-sequence in terms of the degree sequence notion of a graph. We study the regularity of powers of the binomial edge ideals of trees generated…

Commutative Algebra · Mathematics 2023-05-19 Marie Amalore Nambi , Neeraj Kumar

In this article, we shall start with a closed walk on a regular tree of degree $d$. These walks are described by the Kesten-McKay law which arises as the asymptotic distribution of a random $d$-regular graph on $n$ vertices. We will show…

Probability · Mathematics 2021-06-09 Iris Stephanie Arenas Longoria , James A. Mingo

Let $d \geq 3$ be a fixed integer. We give an asympotic formula for the expected number of spanning trees in a uniformly random $d$-regular graph with $n$ vertices. (The asymptotics are as $n\to\infty$, restricted to even $n$ if $d$ is…

Combinatorics · Mathematics 2024-05-31 Catherine Greenhill , Matthew Kwan , David Wind

This paper considers the enumeration of ternary trees (i.e. rooted ordered trees in which each vertex has 0 or 3 children) avoiding a contiguous ternary tree pattern. We begin by finding recurrence relations for several simple tree…

Combinatorics · Mathematics 2011-12-30 Nathan Gabriel , Katherine Peske , Lara Pudwell , Samuel Tay

Phylogenetic networks generalize phylogenetic trees by allowing the modelization of events of reticulate evolution. Among the different kinds of phylogenetic networks that have been proposed in the literature, the subclass of binary…

Data Structures and Algorithms · Computer Science 2020-07-01 Gabriel Cardona , Joan Carles Pons , Celine Scornavacca

R\'emy's algorithm is a Markov chain that iteratively generates a sequence of random trees in such a way that the $n^{\mathrm{th}}$ tree is uniformly distributed over the set of rooted, planar, binary trees with $2n+1$ vertices. We obtain a…

Probability · Mathematics 2020-03-05 Steven N. Evans , Rudolf Grübel , Anton Wakolbinger

Standard sequential generation methods assume a pre-specified generation order, such as text generation methods which generate words from left to right. In this work, we propose a framework for training models of text generation that…

Computation and Language · Computer Science 2019-10-25 Sean Welleck , Kianté Brantley , Hal Daumé , Kyunghyun Cho
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