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Nonlinear data visualization using t-distributed stochastic neighbor embedding (t-SNE) enables the representation of complex single-cell transcriptomic landscapes in two or three dimensions to depict biological populations accurately.…

Genomics · Quantitative Biology 2024-10-02 Hui Ma , Kai Chen

Due to the sequential sample arrival, changing experiment conditions, and evolution of knowledge, the demand to continually visualize evolving structures of sequential and diverse single-cell RNA-sequencing (scRNA-seq) data becomes…

Genomics · Quantitative Biology 2024-06-24 Hui Ma , Kai Chen

Progressive Visual Analytics aims at improving the interactivity in existing analytics techniques by means of visualization as well as interaction with intermediate results. One key method for data analysis is dimensionality reduction, for…

Computer Vision and Pattern Recognition · Computer Science 2016-06-17 Nicola Pezzotti , Boudewijn P. F. Lelieveldt , Laurens van der Maaten , Thomas Höllt , Elmar Eisemann , Anna Vilanova

The t-distributed Stochastic Neighbor Embedding (tSNE) algorithm has become in recent years one of the most used and insightful techniques for the exploratory data analysis of high-dimensional data. tSNE reveals clusters of high-dimensional…

Feature representation is an important aspect of remote-sensing based image classification. While deep convolutional neural networks are able to effectively amalgamate information, large numbers of parameters often make learned features…

Machine Learning · Computer Science 2022-03-07 Joshua Peeples , Sarah Walker , Connor McCurley , Alina Zare , James Keller , Weihuang Xu

A fundamental task in machine learning involves visualizing high-dimensional data sets that arise in high-impact application domains. When considering the context of large imbalanced data, this problem becomes much more challenging. In this…

Machine Learning · Computer Science 2021-09-21 Parisa Hajibabaee , Farhad Pourkamali-Anaraki , Mohammad Amin Hariri-Ardebili

t-Distributed Stochastic Neighbor Embedding (t-SNE) is one of the most widely used dimensionality reduction methods for data visualization, but it has a perplexity hyperparameter that requires manual selection. In practice, proper tuning of…

Artificial Intelligence · Computer Science 2017-08-11 Yanshuai Cao , Luyu Wang

The t-distributed Stochastic Neighbor Embedding (t-SNE) algorithm is a ubiquitously employed dimensionality reduction (DR) method. Its non-parametric nature and impressive efficacy motivated its parametric extension. It is however bounded…

Machine Learning · Computer Science 2020-10-06 Francesco Crecchi , Cyril de Bodt , Michel Verleysen , John A. Lee , Davide Bacciu

T-SNE is a well-known approach to embedding high-dimensional data and has been widely used in data visualization. The basic assumption of t-SNE is that the data are non-constrained in the Euclidean space and the local proximity can be…

Machine Learning · Computer Science 2015-08-06 Mian Wang , Dong Wang

High-dimensional imaging is becoming increasingly relevant in many fields from astronomy and cultural heritage to systems biology. Visual exploration of such high-dimensional data is commonly facilitated by dimensionality reduction.…

Computer Vision and Pattern Recognition · Computer Science 2023-08-04 Alexander Vieth , Anna Vilanova , Boudewijn Lelieveldt , Elmar Eisemann , Thomas Höllt

This article presents a novel application of the t-distributed Stochastic Neighbor Embedding (t-SNE) clustering algorithm to the telecommunication field. t-SNE is a dimensionality reduction (DR) algorithm that allows the visualization of…

Signal Processing · Electrical Eng. & Systems 2023-04-28 Alejandro Ramírez-Arroyo , Luz García , Antonio Alex-Amor , Juan F. Valenzuela-Valdés

When visualizing a high-dimensional dataset, dimension reduction techniques are commonly employed which provide a single 2-dimensional view of the data. We describe ENS-t-SNE: an algorithm for Embedding Neighborhoods Simultaneously that…

Machine Learning · Computer Science 2024-04-02 Jacob Miller , Vahan Huroyan , Raymundo Navarrete , Md Iqbal Hossain , Stephen Kobourov

In this work, the use of t-SNE is proposed to embed 3D point clouds of plants into 2D space for plant characterization. It is demonstrated that t-SNE operates as a practical tool to flatten and visualize a complete 3D plant model in 2D…

Computer Vision and Pattern Recognition · Computer Science 2023-02-08 Helin Dutagaci

T-distributed stochastic neighbour embedding (t-SNE) is a widely used data visualisation technique. It differs from its predecessor SNE by the low-dimensional similarity kernel: the Gaussian kernel was replaced by the heavy-tailed Cauchy…

Machine Learning · Computer Science 2020-07-20 Dmitry Kobak , George Linderman , Stefan Steinerberger , Yuval Kluger , Philipp Berens

We extend a well-known dimension reduction method, t-distributed stochastic neighbor embedding (t-SNE), from non-parametric to parametric by training neural networks. The main advantage of a parametric technique is the generalization of…

Machine Learning · Computer Science 2020-10-01 Chien-Hsun Lai , Yu-Shuen Wang

Across many scientific fields, measurements often represent the number of times an event occurs. For example, a document can be represented by word occurrence counts, neural activity by spike counts per time window, or online communication…

Machine Learning · Statistics 2026-04-21 Noga Mudrik , Adam S. Charles

Multimodal relational data analysis has become of increasing importance in recent years, for exploring across different domains of data, such as images and their text tags obtained from social networking services (e.g., Flickr). A variety…

Machine Learning · Computer Science 2020-05-05 Morihiro Mizutani , Akifumi Okuno , Geewook Kim , Hidetoshi Shimodaira

This study presents a pipeline leveraging t-Distributed Stochastic Neighbor Embedding (t-SNE) for interpretable visualizations of chirp features across diverse outcome scenarios. The dataset, comprising chirp-based temporal, spectral, and…

Machine Learning · Computer Science 2025-08-20 Nooshin Bahador , Milad Lankarany

Embedding and visualizing large-scale high-dimensional data in a two-dimensional space is an important problem since such visualization can reveal deep insights out of complex data. Most of the existing embedding approaches, however, run on…

Machine Learning · Computer Science 2017-03-06 Minjeong Kim , Minsuk Choi , Sunwoong Lee , Jian Tang , Haesun Park , Jaegul Choo

Generative Adversarial Networks (GANs) are powerful generative models that achieved strong results, mainly in the image domain. However, the training of GANs is not trivial, presenting some challenges tackled by different strategies.…

Neural and Evolutionary Computing · Computer Science 2021-02-26 Victor Costa , Nuno Lourenço , João Correia , Penousal Machado