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We study the problem of learning hypergraphs with shortest-path queries (SP-queries), and present the first provably optimal online algorithm for a broad and natural class of hypertrees that we call orderly hypertrees. Our online algorithm…
We study optimization over Riemannian embedded submanifolds, where the objective function is relatively smooth in the ambient Euclidean space. Such problems have broad applications but are still largely unexplored. We introduce two…
In this paper, we propose the approximate Bregman proximal gradient algorithm (ABPG) for solving composite nonconvex optimization problems. ABPG employs a new distance that approximates the Bregman distance, making the subproblem of ABPG…
Nested (or reconciled) phylogenetic trees model co-evolutionary systems in which one evolutionary history is embedded within another. We introduce a geometric framework for such systems by defining $\sigma$-space, a moduli space of fully…
Finding the point in an algebraic variety that is closest to a given point is an optimization problem with many applications. We study the case when the variety is a Fermat hypersurface. Our formula for its Euclidean distance degree is a…
Consider the continuum of points on the edges of a network, i.e., a connected, undirected graph with positive edge weights. We measure the distance between these points in terms of the weighted shortest path distance, called the network…
Traditional stereo matching algorithms like Semi-Global Block Matching (SGBM) with Weighted Least Squares (WLS) filtering offer speed advantages over neural networks for UAV applications, generating disparity maps in approximately 0.5…
We propose a novel method for the inference of phylogenetic trees that utilises point configurations on hyperbolic space as its optimisation landscape. Each taxon corresponds to a point of the point configuration, while the evolutionary…
A \emph{metric tree embedding} of expected \emph{stretch~$\alpha \geq 1$} maps a weighted $n$-node graph $G = (V, E, \omega)$ to a weighted tree $T = (V_T, E_T, \omega_T)$ with $V \subseteq V_T$ such that, for all $v,w \in V$,…
A phylogenetic tree is an acyclic graph with distinctly labeled leaves, whose internal edges have a positive weight. Given a set of n leaves, the collection of all phylogenetic trees with this leaf set can be assembled into a metric cube…
Given a reference set $R$ of $n$ points and a query set $Q$ of $m$ points in a metric space, this paper studies an important problem of finding $k$-nearest neighbors of every point $q \in Q$ in the set $R$ in a near-linear time. In the…
The Angular Constrained Minimum Spanning Tree Problem ($\alpha$-MSTP) is defined in terms of a complete undirected graph $G=(V,E)$ and an angle $\alpha \in (0,2\pi]$. Vertices of $G$ define points in the Euclidean plane while edges, the…
We consider the minimum spanning tree problem on a weighted complete bipartite graph $K_{n_R, n_B}$ whose $n=n_R+n_B$ vertices are random, i.i.d. uniformly distributed points in the unit cube in $d$ dimensions and edge weights are the…
We analyse a maximum-likelihood approach for combining phylogenetic trees into a larger `supertree'. This is based on a simple exponential model of phylogenetic error, which ensures that ML supertrees have a simple combinatorial description…
In this paper, we propose new learning algorithms for approximating high-dimensional functions using tree tensor networks in a least-squares setting. Given a dimension tree or architecture of the tensor network, we provide an algorithm that…
We design a heuristic method, a genetic algorithm, for the computation of an upper bound of the minimum distance of a linear code over a finite field. By the use of the row reduced echelon form, we obtain a permutation encoding of the…
In 2019, Yoshida et al. developed tropical Principal Component Analysis (PCA), that is, an analogue of the classical PCA in the setting of tropical geometry and applied it to visualize a set of gene trees over a space of phylogenetic trees…
We study the following two maximization problems related to spanning trees in the Euclidean plane. It is not known whether or not these problems are NP-hard. We present approximation algorithms with better approximation ratios for both…
We present the first sub-quadratic time algorithm that with high probability correctly reconstructs phylogenetic trees for short sequences generated by a Markov model of evolution. Due to rapid expansion in sequence databases, such very…
Given a graph $G$ cellularly embedded on a surface $\Sigma$ of genus $g$, a cut graph is a subgraph of $G$ such that cutting $\Sigma$ along $G$ yields a topological disk. We provide a fixed parameter tractable approximation scheme for the…