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A hierarchical structure describing the inter-relationships of species has long been a fundamental concept in systematic biology, from Linnean classification through to the more recent quest for a 'Tree of Life.' In this paper we use an…
A simple graph G is k-ordered (respectively, k-ordered hamiltonian) if, for any sequence of k distinct vertices v_1, ..., v_k of G, there exists a cycle (respectively, a hamiltonian cycle) in G containing these k vertices in the specified…
This paper addresses the problem of estimating causal directed acyclic graphs in linear non-Gaussian acyclic models with latent confounders (LvLiNGAM). Existing methods assume mutually independent latent confounders or cannot properly…
Directed acyclic graphical (DAG) models are a powerful tool for representing causal relationships among jointly distributed random variables, especially concerning data from across different experimental settings. However, it is not always…
Directed acyclic graphs (DAGs) with hidden variables are often used to characterize causal relations between variables in a system. When some variables are unobserved, DAGs imply a notoriously complicated set of constraints on the…
Directed Acyclic Graphs (DAGs) are solid structures used to describe and infer the dependencies among variables in multivariate scenarios. Having a thorough comprehension of the accurate DAG-generating model is crucial for causal discovery…
We consider the problem of discovering $K$ related Gaussian directed acyclic graphs (DAGs), where the involved graph structures share a consistent causal order and sparse unions of supports. Under the multi-task learning setting, we propose…
We present practical linear and almost linear-time algorithms to compute a chain decomposition of a directed acyclic graph (DAG), $G=(V,E)$. The number of vertex-disjoint chains computed is very close to the minimum. The time complexity of…
A connected, locally finite graph $\Gamma$ is a Cayley--Abels graph for a totally disconnected, locally compact group $G$ if $G$ acts vertex-transitively with compact, open vertex stabilizers on $\Gamma$. Define the minimal degree of $G$ as…
We present a novel form of Fourier analysis, and associated signal processing concepts, for signals (or data) indexed by edge-weighted directed acyclic graphs (DAGs). This means that our Fourier basis yields an eigendecomposition of a…
Enumerating the directed acyclic graphs (DAGs) of a Markov equivalence class (MEC) is an important primitive in causal analysis. The central resource from the perspective of computational complexity is the delay, that is, the time an…
Weakly separated collections arise in the cluster algebra derived from the Pl\"ucker coordinates on the nonnegative Grassmannian. Oh, Postnikov, and Speyer studied weakly separated collections over a general Grassmann necklace $\mathcal{I}$…
Some temporal networks, most notably citation networks, are naturally represented as directed acyclic graphs (DAGs). To detect communities in DAGs, we propose a modularity for DAGs by defining an appropriate null model (i.e., randomized…
Directed acyclic graphs (DAGs) constitute a central modeling tool to enable principled reasoning about cause-effect interactions in complex systems. However, since the causal structure underlying a group of variables is often unknown and…
Estimating the structure of directed acyclic graphs (DAGs) of features (variables) plays a vital role in revealing the latent data generation process and providing causal insights in various applications. Although there have been many…
In this paper, we employ the decomposition of a directed network as an undirected graph plus its associated node metadata to characterise the cyclic structure found in directed networks by finding a Minimal Cycle Basis of the undirected…
In many situations, it would be useful to know not just the best phylogenetic tree for a given data set, but the collection of high-quality trees. This goal is typically addressed using Bayesian techniques, however, current Bayesian methods…
In the classical model of Diffusion Limited Aggregation (DLA), introduced by Witten and Sander, the process begins with a single particle cluster placed at the origin of a space, and then, one at a time, particles make a random walk from…
Causal processes in biomedicine may contain cycles, evolve over time or differ between populations. However, many graphical models cannot accommodate these conditions. We propose to model causation using a mixture of directed cyclic graphs…
Directed acyclic graphs are a fundamental class of networks that includes citation networks, food webs, and family trees, among others. Here we define a random graph model for directed acyclic graphs and give solutions for a number of the…