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Mining large-scale high-throughput tandem mass spectrometry data sets is a very important problem in mass spectrometry based protein identification. One of the fundamental problems in large scale mining of spectra is to design appropriate…

Quantitative Methods · Quantitative Biology 2007-05-23 Debojyoti Dutta , Ting Chen

A general, {\em rectangular} kernel matrix may be defined as $K_{ij} = \kappa(x_i,y_j)$ where $\kappa(x,y)$ is a kernel function and where $X=\{x_i\}_{i=1}^m$ and $Y=\{y_i\}_{i=1}^n$ are two sets of points. In this paper, we seek a low-rank…

Numerical Analysis · Mathematics 2023-06-30 Difeng Cai , Edmond Chow , Yuanzhe Xi

In this paper we introduce a kernel-based measure for detecting differences between two conditional distributions. Using the `kernel trick' and nearest-neighbor graphs, we propose a consistent estimate of this measure which can be computed…

Methodology · Statistics 2024-08-30 Anirban Chatterjee , Ziang Niu , Bhaswar B. Bhattacharya

Kernel estimation techniques, such as mean shift, suffer from one major drawback: the kernel bandwidth selection. The bandwidth can be fixed for all the data set or can vary at each points. Automatic bandwidth selection becomes a real…

Computer Vision and Pattern Recognition · Computer Science 2011-11-10 Aurelie Bugeau , Patrick Pérez

Change-point analysis is thriving in this big data era to address problems arising in many fields where massive data sequences are collected to study complicated phenomena over time. It plays an important role in processing these data by…

Methodology · Statistics 2022-03-23 Yi-Wei Liu , Hao Chen

Quantum computing can empower machine learning models by enabling kernel machines to leverage quantum kernels for representing similarity measures between data. Quantum kernels are able to capture relationships in the data that are not…

This paper studies density-based clustering of point sets. These methods use dense regions of points to detect clusters of arbitrary shapes. In particular, we study variants of density peaks clustering, a popular type of algorithm that has…

Data Structures and Algorithms · Computer Science 2025-06-04 Shangdi Yu , Joshua Engels , Yihao Huang , Julian Shun

Suppose $V$ is an $n$-element set where for each $x \in V$, the elements of $V \setminus \{x\}$ are ranked by their similarity to $x$. The $K$-nearest neighbor graph is a directed graph including an arc from each $x$ to the $K$ points of $V…

Combinatorics · Mathematics 2020-12-29 Jacob D. Baron , R. W. R. Darling

Multiple kernel learning algorithms are proposed to combine kernels in order to obtain a better similarity measure or to integrate feature representations coming from different data sources. Most of the previous research on such methods is…

Machine Learning · Computer Science 2012-07-03 Mehmet Gonen

We construct near-optimal coresets for kernel density estimates for points in $\mathbb{R}^d$ when the kernel is positive definite. Specifically we show a polynomial time construction for a coreset of size $O(\sqrt{d}/\varepsilon\cdot…

Machine Learning · Computer Science 2019-04-15 Jeff M. Phillips , Wai Ming Tai

Computing persistent homology using Gaussian kernels is useful in the domains of topological data analysis and machine learning as shown by Phillips, Wang and Zheng [SoCG 2015]. However, contrary to the case of computing persistent homology…

Computational Geometry · Computer Science 2023-01-10 Jean-Daniel Boissonnat , Kunal Dutta

Pattern recognition constitutes a particularly important task underlying a great deal of scientific and technologica activities. At the same time, pattern recognition involves several challenges, including the choice of features to…

Machine Learning · Computer Science 2024-09-04 Alexandre Benatti , Luciano da F. Costa

Models like support vector machines or Gaussian process regression often require positive semi-definite kernels. These kernels may be based on distance functions. While definiteness is proven for common distances and kernels, a proof for a…

Machine Learning · Computer Science 2018-07-11 Martin Zaefferer , Thomas Bartz-Beielstein , Günter Rudolph

A recent series of papers by Andoni, Naor, Nikolov, Razenshteyn, and Waingarten (STOC 2018, FOCS 2018) has given approximate near neighbour search (NNS) data structures for a wide class of distance metrics, including all norms. In…

Data Structures and Algorithms · Computer Science 2021-05-12 Deepanshu Kush , Aleksandar Nikolov , Haohua Tang

Locality-sensitive hashing~[Indyk,Motwani'98] is a classical data structure for approximate nearest neighbor search. It allows, after a close to linear time preprocessing of the input dataset, to find an approximately nearest neighbor of…

Data Structures and Algorithms · Computer Science 2024-06-18 Michael Kapralov , Mikhail Makarov , Christian Sohler

We study the k nearest neighbors problem in the plane for general, convex, pairwise disjoint sites of constant description complexity such as line segments, disks, and quadrilaterals and with respect to a general family of distance…

Computational Geometry · Computer Science 2019-10-29 Chih-Hung Liu

When analyzing modern machine learning algorithms, we may need to handle kernel density estimation (KDE) with intricate kernels that are not designed by the user and might even be irregular and asymmetric. To handle this emerging challenge,…

Statistics Theory · Mathematics 2021-06-09 Hau-Tieng Wu , Nan Wu

This tutorial provides a gentle introduction to kernel density estimation (KDE) and recent advances regarding confidence bands and geometric/topological features. We begin with a discussion of basic properties of KDE: the convergence rate…

Methodology · Statistics 2017-09-13 Yen-Chi Chen

Density-based clustering algorithms are widely used for discovering clusters in pattern recognition and machine learning since they can deal with non-hyperspherical clusters and are robustness to handle outliers. However, the runtime of…

Machine Learning · Computer Science 2022-07-07 Difei Cheng , Ruihang Xu , Bo Zhang , Ruinan Jin

The exponential growth of available data has increased the need for interactive exploratory analysis. Dataset can no longer be understood through manual crawling and simple statistics. In Geographical Information Systems (GIS), the dataset…

Distributed, Parallel, and Cluster Computing · Computer Science 2017-05-29 Erik Saule , Dinesh Panchananam , Alexander Hohl , Wenwu Tang , Eric Delmelle