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The list-labeling problem is one of the most basic and well-studied algorithmic primitives in data structures, with an extensive literature spanning upper bounds, lower bounds, and data management applications. The classical algorithm for…
For an undirected tree with $n$ edges labelled by single letters, we consider its substrings, which are labels of the simple paths between pairs of nodes. We prove that there are $O(n^{1.5})$ different palindromic substrings. This solves an…
In the absence of horizontal gene transfer it is possible to reconstruct the history of gene families from empirically determined orthology relations, which are equivalent to event-labeled gene trees. Knowledge of the event labels…
Consider a set of labels $L$ and a set of trees ${\mathcal T} = \{{\mathcal T}^{(1), {\mathcal T}^{(2), ..., {\mathcal T}^{(k) \$ where each tree ${\mathcal T}^{(i)$ is distinctly leaf-labeled by some subset of $L$. One fundamental problem…
Estimating phylogenetic trees, which depict the relationships between different species, from aligned sequence data (such as DNA, RNA, or proteins) is one of the main aims of evolutionary biology. However, tree reconstruction criteria like…
We investigate the number of permutations that occur in random labellings of trees. This is a generalisation of the number of subpermutations occurring in a random permutation. It also generalises some recent results on the number of…
A graph $G$ is universal for a class of graphs $\mathcal{C}$, if, up to isomorphism, $G$ contains every graph in $\mathcal{C}$ as a subgraph. In 1978, Chung and Graham asked for the minimal number $s(n)$ of edges in a graph with $n$…
A rooted tree $T$ with vertex labels $t(v)$ and set-valued edge labels $\lambda(e)$ defines maps $\delta$ and $\varepsilon$ on the pairs of leaves of $T$ by setting $\delta(x,y)=q$ if the last common ancestor $\text{lca}(x,y)$ of $x$ and…
Different sources of information might tell different stories about the evolutionary history of a given set of species. This leads to (rooted) phylogenetic trees that "disagree" on triples of species, which we call "conflict triples". An…
Species tree reconstruction from genomic data is increasingly performed using methods that account for sources of gene tree discordance such as incomplete lineage sorting. One popular method for reconstructing species trees from unrooted…
Decision trees have been a very popular class of predictive models for decades due to their interpretability and good performance on categorical features. However, they are not always robust and tend to overfit the data. Additionally, if…
Label prediction in neural networks (NNs) has O(n) complexity proportional to the number of classes. This holds true for classification using fully connected layers and cosine similarity with some set of class prototypes. In this paper we…
The Minimum Quartet Tree Cost problem is to construct an optimal weight tree from the $3{n \choose 4}$ weighted quartet topologies on $n$ objects, where optimality means that the summed weight of the embedded quartet topologies is optimal…
This work considers a number of optimization problems and reductive relations between them. The two main problems we are interested in are the \emph{Optimal Decision Tree} and \emph{Set Cover}. We study these two fundamental tasks under…
An adjacency labeling scheme is a method that assigns labels to the vertices of a graph such that adjacency between vertices can be inferred directly from the assigned label, without using a centralized data structure. We devise adjacency…
In this paper we continue the study of permutations avoiding the vincular pattern $1-32-4$ by constructing a generating tree with a single label for these permutations. This construction finally provides a clearer explanation of why a…
We study the problem of computing the triplet distance between two rooted unordered trees with $n$ labeled leafs. Introduced by Dobson 1975, the triplet distance is the number of leaf triples that induce different topologies in the two…
Hyperspectral tree species classification is challenging due to limited and imbalanced class labels, spectral mixing (overlapping light signatures from multiple species), and ecological heterogeneity (variability among ecological systems).…
Given two messages - as linear sequences of letters, it is immediate to determine whether one can be transformed into the other by simple substitution cipher of the letters. On the other hand, if the letters are carried as labels on nodes…
Given a directed graph $G$ on $n$ vertices with a special vertex $s$, the directed minimum degree spanning tree problem requires computing a incoming spanning tree rooted at $s$ whose maximum tree in-degree is the smallest among all such…