Related papers: Leaf management
In this paper, we give an overview of some recent work on applying tools from category theory in finite model theory, descriptive complexity, constraint satisfaction, and combinatorics. The motivations for this work come from Computer…
Tree Containment is a fundamental problem in phylogenetics useful for verifying a proposed phylogenetic network, representing the evolutionary history of certain species. Tree Containment asks whether the given phylogenetic tree (for…
In this paper we consider two aspects of the inverse problem of how to construct merge trees realizing a given barcode. Much of our investigation exploits a recently discovered connection between the symmetric group and barcodes in general…
For a given graph $G$, a depth-first search (DFS) tree $T$ of $G$ is an $r$-rooted spanning tree such that every edge of $G$ is either an edge of $T$ or is between a \textit{descendant} and an \textit{ancestor} in $T$. A graph $G$ together…
Tree sets are posets with additional structure that generalize tree-like objects in graphs, matroids, or other combinatorial structures. They are a special class of abstract separation systems. We study infinite tree sets and how they…
Counterfactual explanations are usually generated through heuristics that are sensitive to the search's initial conditions. The absence of guarantees of performance and robustness hinders trustworthiness. In this paper, we take a…
We introduce bijections between families of rooted maps with unfixed genus and families of so-called blossoming trees endowed with an arbitrary forward matching of their leaves. We first focus on Eulerian maps with controlled vertex…
This paper introduces a new combinatorial framework for modeling the growth of binary trees through a discrete evolution process that incorporates a growing rule and an extinction rule. Building upon the theory of increasingly labeled…
Leaf powers and $k$-leaf powers have been studied for over 20 years, but there are still several aspects of this graph class that are poorly understood. One such aspect is the leaf rank of leaf powers, i.e. the smallest number $k$ such that…
This paper investigates some properties of the number of subtrees of a tree with given degree sequence. These results are used to characterize trees with the given degree sequence that have the largest number of subtrees, which generalizes…
Suppose N is a phylogenetic network indicating a complicated relationship among individuals and taxa. Often of interest is a much simpler network, for example, a species tree T, that summarizes the most fundamental relationships. The…
We provide a complete description of possible covariance matrices consistent with a Gaussian latent tree model for any tree. We then present techniques for utilising these constraints to assess whether observed data is compatible with that…
Tree-child networks are a recently-described class of directed acyclic graphs that have risen to prominence in phylogenetics (the study of evolutionary trees and networks). Although these networks have a number of attractive mathematical…
Counterfactual explanations are a central tool in interpretable machine learning, yet computing them exactly for complex models remains challenging. For tree ensembles, predictions are piecewise constant over a large collection of…
Frequent pattern mining is a relevant method to analyse structured data, like sequences, trees or graphs. It consists in identifying characteristic substructures of a dataset. This paper deals with a new type of patterns for tree data:…
We provide a local probabilistic description of the limiting statistics of large preferential attachment trees in terms of the ordinary degree (number of neighbors) but augmented with information on leafdegree (number of neighbors that are…
Let $G$ be a connected graph and $L(G)$ the set of all integers $k$ such that $G$ contains a spanning tree with exactly $k$ leaves. We show that for a connected graph $G$, the set $L(G)$ is contiguous. It follows from work of Chen, Ren, and…
Following Poupard's study of strictly ordered binary trees with respect to two parameters, namely, "end of minimal chain" and "parent of maximum leaf" a true Tree Calculus is being developed to solve a partial difference equation system and…
We define the beta diffusion tree, a random tree structure with a set of leaves that defines a collection of overlapping subsets of objects, known as a feature allocation. A generative process for the tree structure is defined in terms of…
Decision trees are well-known due to their ease of interpretability. To improve accuracy, we need to grow deep trees or ensembles of trees. These are hard to interpret, offsetting their original benefits. Shapley values have recently become…