Related papers: A universal tree-based network with the minimum nu…
Net-trees are a general purpose data structure for metric data that have been used to solve a wide range of algorithmic problems. We give a simple randomized algorithm to construct net-trees on doubling metrics using $O(n\log n)$ time in…
We show a first-order asymptotics result for the number of galled networks with $n$ leaves. This is the first class of phylogenetic networks of {\it large} size for which an asymptotic counting result of such strength can be obtained. In…
The network reconfiguration problem seeks to find a rooted tree $T$ such that the energy of the (unique) feasible electrical flow over $T$ is minimized. The tree requirement on the support of the flow is motivated by operational constraints…
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…
Decompositions of networks are useful not only for structural exploration. They also have implications and use in analysis and computational solution of processes (such as the Ising model, percolation, SIR model) running on a given network.…
Let $\triangleleft$ be a relation between graphs. We say a graph $G$ is \emph{$\triangleleft$-ubiquitous} if whenever $\Gamma$ is a graph with $nG \triangleleft \Gamma$ for all $n \in \mathbb{N}$, then one also has $\aleph_0 G \triangleleft…
We show how neural models can be used to realize piece-wise constant functions such as decision trees. The proposed architecture, which we call locally constant networks, builds on ReLU networks that are piece-wise linear and hence their…
Tree-child networks, one of the prominent network classes in phylogenetics, have been introduced for the purpose of modeling reticulate evolution. Recently, the first author together with Gittenberger and Mansouri (2019) showed that the…
We introduce the zip tree, a form of randomized binary search tree that integrates previous ideas into one practical, performant, and pleasant-to-implement package. A zip tree is a binary search tree in which each node has a numeric rank…
We consider the NP-hard Tree Containment problem that has important applications in phylogenetics. The problem asks if a given leaf-labeled network contains a subdivision of a given leaf-labeled tree. We develop a fast algorithm for the…
'Tree-based' phylogenetic networks proposed by Francis and Steel have attracted much attention of theoretical biologists in the last few years. At the heart of the definitions of tree-based phylogenetic networks is the notion of 'support…
A general quantum network for implementing non-local control-unitary gates, between remote parties at minimal entanglement cost, is shown to be a rooted-tree structure. Starting from a five party scenario, we demonstrate the local…
Training neural networks to be certifiably robust is critical to ensure their safety against adversarial attacks. However, it is currently very difficult to train a neural network that is both accurate and certifiably robust. In this work…
Rooted phylogenetic networks are used to describe evolutionary histories that contain non-treelike evolutionary events such as hybridization and horizontal gene transfer. In some cases, such histories can be described by a phylogenetic…
We study the fault-tolerance of networks from both the structural and computational point of view using the minimum leaf number of the corresponding graph $G$, i.e. the minimum number of leaves of the spanning trees of $G$, and its…
Given a rooted tree and a ranking of its leaves, what is the minimum number of inversions of the leaves that can be attained by ordering the tree? This variation of the problem of counting inversions in arrays originated in mathematical…
We obtain new lower and upper bounds for the maximum multiplicity of some weighted and, respectively, non-weighted common geometric graphs drawn on n points in the plane in general position (with no three points collinear): perfect…
We present a randomized algorithm for reconstructing directed rooted trees of $n$ nodes and node degree at most $d$, by asking at most $O(dn\log^2 n)$ path queries. Each path query takes as input an origin node and a target node, and…
Rooted triples, rooted binary phylogenetic trees on three leaves, are sufficient to encode rooted binary phylogenetic trees. That is, if $\mathcal T$ and $\mathcal T'$ are rooted binary phylogenetic $X$-trees that infers the same set of…
Given a finite set $X$, a collection $\mathcal{T}$ of rooted phylogenetic trees on $X$ and an integer $k$, the Hybridization Number problem asks if there exists a phylogenetic network on $X$ that displays all trees from $\mathcal{T}$ and…