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Spatial transcriptomics studies are becoming increasingly large and commonplace, necessitating simultaneous analysis of a large number of spatially resolved variables. Correspondingly, a diverse range of methodologies have been proposed to…

定量方法 · 定量生物学 2025-09-09 James Boyle , Gregory Hamm , Eleanor Williams , Robin JG Hartman , Magnus Soderburg , Ian Henry , Michael Casey

2. In Section 3, we used some vague statements to affirm the training process of the neural network, which cannot support others to reproduce the results of the paper. In addition, this section does not show the difference between this…

最优化与控制 · 数学 2020-07-01 Liang Xue , Jie Liu , Guilin Wen , Hongxin Wang

Persistent homology of the Rips filtration allows to track topological features of a point cloud over scales, and is a foundational tool of topological data analysis. Unfortunately, the Rips-filtration is exponentially sized, when…

计算几何 · 计算机科学 2018-07-27 Bernhard Brehm , Hanne Hardering

Topological data analysis (TDA) has emerged as one of the most promising techniques to reconstruct the unknown shapes of high-dimensional spaces from observed data samples. TDA, thus, yields key shape descriptors in the form of persistent…

机器学习 · 统计学 2017-11-15 Wei Guo , Krithika Manohar , Steven L. Brunton , Ashis G. Banerjee

With the rapid adoption of machine learning techniques for large-scale applications in science and engineering comes the convergence of two grand challenges in visualization. First, the utilization of black box models (e.g., deep neural…

Developing methods to process irregularly structured data is crucial in applications like gene-regulatory, brain, power, and socioeconomic networks. Graphs have been the go-to algebraic tool for modeling the structure via nodes and edges…

信号处理 · 电气工程与系统科学 2025-02-17 Elvin Isufi , Geert Leus , Baltasar Beferull-Lozano , Sergio Barbarossa , Paolo Di Lorenzo

The work explores a specific scenario for structural computational optimization based on the following elements: (a) a relaxed optimization setting considering the ersatz (bi-material) approximation, (b) a treatment based on a nonsmoothed…

计算工程、金融与科学 · 计算机科学 2021-08-06 J. Oliver , D. Yago , J. Cante , O. Lloberas-Valls

Real data is often given as a point cloud, i.e. a finite set of points with pairwise distances between them. An important problem is to detect the topological shape of data --- for example, to approximate a point cloud by a low-dimensional…

代数拓扑 · 数学 2018-10-09 Sara Kalisnik Verovsek , Vitaliy Kurlin , Davorin Lesnik

A wide range of data that appear in scientific experiments and simulations are multivariate or multifield in nature, consisting of multiple scalar fields. Topological feature search of such data aims to reveal important properties useful to…

计算几何 · 计算机科学 2024-06-06 Tripti Agarwal , Amit Chattopadhyay , Vijay Natarajan

Mapper is an algorithm that summarizes the topological information contained in a dataset and provides an insightful visualization. It takes as input a point cloud which is possibly high-dimensional, a filter function on it and an open…

Topological methods, including persistent homology, are powerful tools for analysis of high-dimensional data sets but these methods rely almost exclusively on thresholding techniques. In noisy data sets, thresholding does not always allow…

计算几何 · 计算机科学 2016-09-08 Jennifer Kloke , Gunnar Carlsson

Topological Data Analysis (TDA) allows us to extract powerful topological and higher-order information on the global shape of a data set or point cloud. Tools like Persistent Homology or the Euler Transform give a single complex description…

代数拓扑 · 数学 2025-11-04 Vincent P. Grande , Michael T. Schaub

In this paper, we propose a low-complexity method to approximately solve the SINR-constrained optimization problem of symbol-level precoding (SLP). First, assuming a generic modulation scheme, the precoding optimization problem is recast as…

信号处理 · 电气工程与系统科学 2019-03-11 Alireza Haqiqatnejad , Farbod Kayhan , Bjorn Ottersten

Given a real-valued function $f$ defined over a manifold $M$ embedded in $\mathbb{R}^d$, we are interested in recovering structural information about $f$ from the sole information of its values on a finite sample $P$. Existing methods…

计算几何 · 计算机科学 2015-04-08 Mickaël Buchet , Frédéric Chazal , Tamal K. Dey , Fengtao Fan , Steve Y. Oudot , Yusu Wang

Topological Data Analysis (TDA) provides a pipeline to extract quantitative topological descriptors from structured objects. This enables the definition of topological loss functions, which assert to what extent a given object exhibits some…

人工智能 · 计算机科学 2024-05-30 Mathieu Carriere , Marc Theveneau , Théo Lacombe

Unsupervised representation learning methods are widely used for gaining insight into high-dimensional, unstructured, or structured data. In some cases, users may have prior topological knowledge about the data, such as a known cluster…

机器学习 · 计算机科学 2023-11-08 Edith Heiter , Robin Vandaele , Tijl De Bie , Yvan Saeys , Jefrey Lijffijt

This paper presents a novel topology-aware dimensionality reduction approach aiming at accurately visualizing the cyclic patterns present in high dimensional data. To that end, we build on the Topological Autoencoders (TopoAE) formulation.…

计算几何 · 计算机科学 2025-10-06 Mattéo Clémot , Julie Digne , Julien Tierny

In this research, we propose a deep learning based approach for speeding up the topology optimization methods. The problem we seek to solve is the layout problem. The main novelty of this work is to state the problem as an image…

机器学习 · 计算机科学 2017-09-28 Ivan Sosnovik , Ivan Oseledets

Multiplexed imaging allows multiple cell types to be simultaneously visualised in a single tissue sample, generating unprecedented amounts of spatially-resolved, biological data. In topological data analysis, persistent homology provides…

In many real-world problems, we are dealing with collections of high-dimensional data, such as images, videos, text and web documents, DNA microarray data, and more. Often, high-dimensional data lie close to low-dimensional structures…

计算机视觉与模式识别 · 计算机科学 2013-02-06 Ehsan Elhamifar , Rene Vidal