Related papers: Simplifying and Characterizing DAGs and Phylogenet…
In mathematical phylogenetics, evolutionary relationships are often represented by trees and networks. The latter are typically used whenever the relationships cannot be adequately described by a tree, which happens when so-called…
Distributed Ledger Technologies provide a mechanism to achieve ordering among transactions that are scattered on multiple participants with no prerequisite trust relations. This mechanism is essentially based on the idea of new transactions…
Causal interactions among a group of variables are often modeled by a single causal graph. In some domains, however, these interactions are best described by multiple co-existing causal graphs, e.g., in dynamical systems or genomics. This…
Phylogenetic networks model reticulate evolutionary histories. The last two decades have seen an increased interest in establishing mathematical results and developing computational methods for inferring and analyzing these networks. A…
Finding the origin of short phrases propagating through the web has been formalized by Leskovec et al. [ACM SIGKDD 2009] as DAG Partitioning: given an arc-weighted directed acyclic graph on $n$ vertices and $m$ arcs, delete arcs with total…
Dependency trees convey rich structural information that is proven useful for extracting relations among entities in text. However, how to effectively make use of relevant information while ignoring irrelevant information from the…
Identifying controlled direct effects (CDEs) is crucial across numerous scientific domains. While existing methods can identify these effects from causal directed acyclic graphs (DAGs), the true DAG is often unknown in practice. Essential…
We study a distributed learning problem in which learning agents are embedded in a directed acyclic graph (DAG). There is a fixed and arbitrary distribution over feature/label pairs, and each agent or vertex in the graph is able to directly…
A directed acyclic graph (DAG) provides valuable prior knowledge that is often discarded in regression tasks in machine learning. We show that the independences arising from the presence of collider structures in DAGs provide meaningful…
We present graph attention networks (GATs), novel neural network architectures that operate on graph-structured data, leveraging masked self-attentional layers to address the shortcomings of prior methods based on graph convolutions or…
Bayesian phylogenetics typically estimates a posterior distribution, or aspects thereof, using Markov chain Monte Carlo methods. These methods integrate over tree space by applying local rearrangements to move a tree through its space as a…
Learning the structure of dependence relations between variables is a pervasive issue in the statistical literature. A directed acyclic graph (DAG) can represent a set of conditional independences, but different DAGs may encode the same set…
We consider the problem of estimating the differences between two causal directed acyclic graph (DAG) models with a shared topological order given i.i.d. samples from each model. This is of interest for example in genomics, where changes in…
Phylogenetic networks are a generalization of phylogenetic trees that are used to represent reticulate evolution. Unrooted phylogenetic networks form a special class of such networks, which naturally generalize unrooted phylogenetic trees.…
Identification and appropriate handling of inconsistencies in data at deployment time is crucial to reliably use machine learning models. While recent data-centric methods are able to identify such inconsistencies with respect to the…
We study \emph{local computation algorithms (LCAs)} for constructing spanning trees. In this setting, the goal is to locally determine, for each edge $ e \in E $, whether it belongs to a spanning tree $ T $ of the input graph $ G $, where $…
Directed graphs (DG), interpreted as state transition diagrams, are traditionally used to represent finite-state automata (FSA). In the context of formal languages, both FSA and regular expressions (RE) are equivalent in that they accept…
Structural information of phylogenetic tree topologies plays an important role in phylogenetic inference. However, finding appropriate topological structures for specific phylogenetic inference tasks often requires significant design effort…
An encoding of directed acyclic graphs (DAGs) on labeled vertices is proposed, which is a generalisation of the Pr\"ufer code for labeled trees, if a certain orienation on the edges of the tree is introduced. Hence it is shown that the…
We study identifiability of Andersson-Madigan-Perlman (AMP) chain graph models, which are a common generalization of linear structural equation models and Gaussian graphical models. AMP models are described by DAGs on chain components which…