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Semi-directed networks are partially directed graphs that model evolution where the directed edges represent reticulate evolutionary events. We present an algorithm that reconstructs binary $n$-leaf semi-directed level-1 networks in $O(…

Populations and Evolution · Quantitative Biology 2025-07-24 Martin Frohn , Niels Holtgrefe , Leo van Iersel , Mark Jones , Steven Kelk

Contour trees offer an abstract representation of the level set topology in scalar fields and are widely used in topological data analysis and visualization. However, applying contour trees to large-scale scientific datasets remains…

Computational Geometry · Computer Science 2025-08-13 Mingzhe Li , Hamish Carr , Oliver Rübel , Bei Wang , Gunther H. Weber

Tree embedding has been a fundamental method in algorithm design with wide applications. We focus on the efficiency of building tree embedding in various computational settings under high-dimensional Euclidean $\mathbb{R}^d$. We devise a…

Data Structures and Algorithms · Computer Science 2026-01-13 Gramoz Goranci , Shaofeng H. -C. Jiang , Peter Kiss , Qihao Kong , Yi Qian , Eva Szilagyi

To date, the only way to argue polynomial lower bounds for dynamic algorithms is via fine-grained complexity arguments. These arguments rely on strong assumptions about specific problems such as the Strong Exponential Time Hypothesis (SETH)…

Computational Complexity · Computer Science 2023-07-27 Sayan Bhattacharya , Danupon Nanongkai , Thatchaphol Saranurak

We present an algorithm that allows for building left-balanced and complete k-d trees over k-dimensional points in a trivially parallel and GPU friendly way. Our algorithm requires exactly one int per data point as temporary storage, and…

Data Structures and Algorithms · Computer Science 2023-04-06 Ingo Wald

We consider preprocessing a set $S$ of $n$ points in convex position in the plane into a data structure supporting queries of the following form: given a point $q$ and a directed line $\ell$ in the plane, report the point of $S$ that is…

Computational Geometry · Computer Science 2017-10-16 Boris Aronov , Prosenjit Bose , Erik D. Demaine , Joachim Gudmundsson , John Iacono , Stefan Langerman , Michiel Smid

The $\textit{Abelian Sandpile}$ model is a well-known model used in exploring $\textit{self-organized criticality}$. Despite a large amount of work on other aspects of sandpiles, there have been limited results in efficiently computing the…

Data Structures and Algorithms · Computer Science 2024-04-09 Ruinian Chang , Jingbang Chen , Ian Munro , Richard Peng , Qingyu Shi , Zeyu Zheng

In this paper, we develop constructive algorithms for generating quasi-uniform point sets and sequences over arbitrary two-dimensional triangular domains. Our proposed method, called the \emph{Voronoi-guided greedy packing} algorithm,…

Numerical Analysis · Mathematics 2026-04-07 Hengjun Xu , Takashi Goda

Optimal transport is a fundamental topic that has attracted a great amount of attention from the optimization community in the past decades. In this paper, we consider an interesting discrete dynamic optimal transport problem: can we…

Data Structures and Algorithms · Computer Science 2024-01-30 Xiaoyang Xu , Hu Ding

The Voronoi diagram of a finite set of objects is a fundamental geometric structure that subdivides the embedding space into regions, each region consisting of the points that are closer to a given object than to the others. We may define…

Computational Geometry · Computer Science 2020-10-01 Frank Nielsen , Jean-Daniel Boissonnat , Richard Nock

Topological maps are more suitable than metric maps for robotic exploration tasks. However, real-time updating of accurate and detail-rich environmental topological maps remains a challenge. This paper presents a topological map updating…

Robotics · Computer Science 2025-11-25 Yanbin Li , Canran Xiao , Shenghai Yuan , Peilai Yu , Ziruo Li , Zhiguo Zhang , Wenzheng Chi , Wei Zhang

In this paper, we develop new efficient projection-free algorithms for Online Convex Optimization (OCO). Online Gradient Descent (OGD) is an example of a classical OCO algorithm that guarantees the optimal $O(\sqrt{T})$ regret bound.…

Machine Learning · Computer Science 2022-05-24 Zakaria Mhammedi

Typical topology optimization methods require complex iterative calculations, which cannot meet the requirements of fast computing applications. The neural network is studied to reduce the time of computing the optimization result, however,…

Computational Physics · Physics 2024-01-12 Ce Guan , Jianyu Zhang , Zhen Li , Yongbo Deng

In this work, we introduce an algorithmic approach to generate microvascular networks starting from larger vessels that can be reconstructed without noticeable segmentation errors. Contrary to larger vessels, the reconstruction of…

Computational Engineering, Finance, and Science · Computer Science 2020-07-10 Tobias Köppl , Ettore Vidotto , Barbara Wohlmuth

A graph is rectilinear planar if it admits a planar orthogonal drawing without bends. While testing rectilinear planarity is NP-hard in general (Garg and Tamassia, 2001), it is a long-standing open problem to establish a tight upper bound…

Data Structures and Algorithms · Computer Science 2023-06-23 Walter Didimo , Michael Kaufmann , Giuseppe Liotta , Giacomo Ortali

The Voronoi diagrams are an important tool having theoretical and practical applications in a large number of fields. We present a new procedure, implemented as a set of CUDA kernels, which detects, in a general and efficient way,…

Soft Condensed Matter · Physics 2017-03-08 Massimo Bernaschi , Matteo Lulli , Mauro Sbragaglia

The active field of Functional Data Analysis (about understanding the variation in a set of curves) has been recently extended to Object Oriented Data Analysis, which considers populations of more general objects. A particularly challenging…

Statistics Theory · Mathematics 2008-10-07 Burcu Aydin , Gabor Pataki , Haonan Wang , Elizabeth Bullitt , J. S. Marron

The Planar Steiner Tree problem is one of the most fundamental NP-complete problems as it models many network design problems. Recall that an instance of this problem consists of a graph with edge weights, and a subset of vertices (often…

Data Structures and Algorithms · Computer Science 2018-11-19 Sándor Kisfaludi-Bak , Jesper Nederlof , Erik Jan van Leeuwen

Owing to the natural interpretation and various desirable mathematical properties, centroidal Voronoi tessellations (CVT) have found a wide range of applications and correspondingly a vast development in their literature. However the…

Computational Geometry · Computer Science 2022-03-30 Bhagyashri Telsang , Seddik Djouadi

In this paper we describe a randomized algorithm which returns a maximal spanning forest of an unknown {\em weighted} undirected graph making $O(n)$ $\mathsf{CUT}$ queries in expectation. For weighted graphs, this is optimal due to a result…

Data Structures and Algorithms · Computer Science 2023-06-21 Hang Liao , Deeparnab Chakrabarty