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In phylogenetics, a central problem is to infer the evolutionary relationships between a set of species $X$; these relationships are often depicted via a phylogenetic tree -- a tree having its leaves univocally labeled by elements of $X$…

Data Structures and Algorithms · Computer Science 2016-04-12 Julien Baste , Christophe Paul , Ignasi Sau , Celine Scornavacca

Cartesian tree pattern matching consists of finding all the factors of a text that have the same Cartesian tree than a given pattern. There already exist theoretical and practical solutions for the exact case. In this paper, we propose the…

Data Structures and Algorithms · Computer Science 2025-05-15 Bastien Auvray , Julien David , Samah Ghazawi , Richard Groult , Gad M. Landau , Thierry Lecroq

Many natural language processing (NLP) applications require the computation of similarities between pairs of syntactic or semantic trees. Many researchers have used tree edit distance for this task, but this technique suffers from the…

Computation and Language · Computer Science 2014-02-05 Maytham Alabbas , Allan Ramsay

In this paper, we present a flexible and probabilistic framework for tracking topological features in time-varying scalar fields using merge trees and partial optimal transport. Merge trees are topological descriptors that record the…

Computational Geometry · Computer Science 2025-08-26 Mingzhe Li , Xinyuan Yan , Lin Yan , Tom Needham , Bei Wang

The graph edit distance is used for comparing graphs in various domains. Due to its high computational complexity it is primarily approximated. Widely-used heuristics search for an optimal assignment of vertices based on the distance…

Data Structures and Algorithms · Computer Science 2023-12-08 Franka Bause , Christian Permann , Nils M. Kriege

This paper presents a novel algorithm for robot task and motion planning (TAMP) problems by utilizing a reachability tree. While tree-based algorithms are known for their speed and simplicity in motion planning (MP), they are not…

Robotics · Computer Science 2024-01-15 Kanghyun Kim , Daehyung Park , Min Jun Kim

We introduce K-tree in an information retrieval context. It is an efficient approximation of the k-means clustering algorithm. Unlike k-means it forms a hierarchy of clusters. It has been extended to address issues with sparse…

Information Retrieval · Computer Science 2010-01-07 Christopher M. De Vries , Shlomo Geva

A merge tree is a fundamental topological structure used to capture the sub-level set (and similarly, super-level set) topology in scalar data analysis. The interleaving distance is a theoretically sound, stable metric for comparing merge…

Computational Geometry · Computer Science 2026-02-13 Althaf P , Amit Chattopadhyay , Osamu Saeki

Similarity search, the task of identifying objects most similar to a given query object under a specific metric, has gathered significant attention due to its practical applications. However, the absence of coordinate information to…

Databases · Computer Science 2024-05-14 Yifan Zhu , Ruiyao Ma , Baihua Zheng , Xiangyu Ke , Lu Chen , Yunjun Gao

The problem of {\em efficiently} finding the best match for a query in a given set with respect to the Euclidean distance or the cosine similarity has been extensively studied in literature. However, a closely related problem of efficiently…

Computational Geometry · Computer Science 2021-06-24 Parikshit Ram , Alexander G. Gray

The graph matching problem aims to discover a latent correspondence between the vertex sets of two observed graphs. This problem has proven to be quite challenging, with few satisfying methods that are computationally tractable and widely…

Computation · Statistics 2018-07-26 Fei Fang , Daniel L. Sussman , Vince Lyzinski

On-screen keyboard eye-typing systems are limited due to the lack of predictive text and user-centred approaches, resulting in low text entry rates and frequent recalibration. This work proposes integrating the prediction by partial…

Human-Computer Interaction · Computer Science 2024-10-14 Hrushikesh Etikikota , Yogesh Kumar Meena

Topological structures such as the merge tree provide an abstract and succinct representation of scalar fields. They facilitate effective visualization and interactive exploration of feature-rich data. A merge tree captures the topology of…

Computational Geometry · Computer Science 2024-06-06 Raghavendra Sridharamurthy , Talha Bin Masood , Adhitya Kamakshidasan , Vijay Natarajan

Comparative analysis of scalar fields is an important problem with various applications including feature-directed visualization and feature tracking in time-varying data. Comparing topological structures that are abstract and succinct…

Graphics · Computer Science 2024-06-06 Raghavendra Sridharamurthy , Vijay Natarajan

We consider the following basic problem in phylogenetic tree construction. Let $\mathcal{P} = \{T_1, \ldots, T_k\}$ be a collection of rooted phylogenetic trees over various subsets of a set of species. The tree compatibility problem asks…

Data Structures and Algorithms · Computer Science 2015-10-28 Yun Deng , David Fernández-Baca

Comparing document semantics is one of the toughest tasks in both Natural Language Processing and Information Retrieval. To date, on one hand, the tools for this task are still rare. On the other hand, most relevant methods are devised from…

Computation and Language · Computer Science 2020-12-09 Yuqi Kong , Fanchao Meng , Benjamin Carterette

Bytewise approximate matching algorithms have in recent years shown significant promise in de- tecting files that are similar at the byte level. This is very useful for digital forensic investigators, who are regularly faced with the…

Cryptography and Security · Computer Science 2022-11-15 David Lillis , Frank Breitinger , Mark Scanlon

Recent advances in machine learning and artificial intelligence are now being considered in safety-critical autonomous systems where software defects may cause severe harm to humans and the environment. Design organizations in these domains…

Machine Learning · Computer Science 2020-03-24 John Törnblom , Simin Nadjm-Tehrani

With the development of connected filters for the last decade, many algorithms have been proposed to compute the max-tree. Max-tree allows to compute the most advanced connected operators in a simple way. However, no fair comparison of…

Computer Vision and Pattern Recognition · Computer Science 2013-01-11 Edwin Carlinet , Thierry Géraud

Fact tracing seeks to identify specific training examples that serve as the knowledge source for a given query. Existing approaches to fact tracing rely on assessing the similarity between each training sample and the query along a certain…

Computation and Language · Computer Science 2024-04-24 Si Chen , Feiyang Kang , Ning Yu , Ruoxi Jia