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Uniform Manifold Approximation and Projection (UMAP) is a widely used manifold learning technique for dimensionality reduction. This paper studies UMAP, supervised UMAP, and several competing dimensionality reduction methods, including…

Machine Learning · Computer Science 2026-05-04 Guanzhe Zhang , Shanshan Ding , Zhezhen Jin

Data visualisation is a key tool in data mining for understanding big datasets. Many visualisation methods have been proposed, including the well-regarded state-of-the-art method t-Distributed Stochastic Neighbour Embedding. However, the…

Neural and Evolutionary Computing · Computer Science 2020-01-29 Andrew Lensen , Bing Xue , Mengjie Zhang

In this paper, we propose a Tensor Train Neighborhood Preserving Embedding (TTNPE) to embed multi-dimensional tensor data into low dimensional tensor subspace. Novel approaches to solve the optimization problem in TTNPE are proposed. For…

Machine Learning · Computer Science 2018-05-09 Wenqi Wang , Vaneet Aggarwal , Shuchin Aeron

We describe a new method called t-ETE for finding a low-dimensional embedding of a set of objects in Euclidean space. We formulate the embedding problem as a joint ranking problem over a set of triplets, where each triplet captures the…

Artificial Intelligence · Computer Science 2017-05-18 Ehsan Amid , Nikos Vlassis , Manfred K. Warmuth

Visualizing high-dimensional data is essential for understanding biomedical data and deep learning models. Neighbor embedding methods, such as t-SNE and UMAP, are widely used but can introduce misleading visual artifacts. We find that the…

Methodology · Statistics 2025-04-02 Zhexuan Liu , Rong Ma , Yiqiao Zhong

Analyzing high-dimensional data with manifold learning algorithms often requires searching for the nearest neighbors of all observations. This presents a computational bottleneck in statistical manifold learning when observations of…

Machine Learning · Computer Science 2022-03-11 Fan Cheng , Anastasios Panagiotelis , Rob J Hyndman

tSNE and UMAP are popular dimensionality reduction algorithms due to their speed and interpretable low-dimensional embeddings. Despite their popularity, however, little work has been done to study their full span of differences. We…

$k$ Nearest Neighbors ($k$NN) is one of the most widely used supervised learning algorithms to classify Gaussian distributed data, but it does not achieve good results when it is applied to nonlinear manifold distributed data, especially…

Machine Learning · Computer Science 2016-06-06 Enmei Tu , Yaqian Zhang , Lin Zhu , Jie Yang , Nikola Kasabov

Topology based dimensionality reduction methods such as t-SNE and UMAP have seen increasing success and popularity in high-dimensional data. These methods have strong mathematical foundations and are based on the intuition that the topology…

Artificial Intelligence · Computer Science 2021-12-17 Ayush Dalmia , Suzanna Sia

Recent advancements in discrete image generation showed that scaling the VQ codebook size significantly improves reconstruction fidelity. However, training generative models with a large VQ codebook remains challenging, typically requiring…

Computer Vision and Pattern Recognition · Computer Science 2026-03-17 Shufan Li , Jiuxiang Gu , Kangning Liu , Zhe Lin , Aditya Grover , Jason Kuen

Uniform Manifold Approximation and Projection (UMAP) is one of the state-of-the-art methods for dimensionality reduction and data visualization. This is a tutorial and survey paper on UMAP and its variants. We start with UMAP algorithm…

Human-Computer Interaction · Computer Science 2021-09-07 Benyamin Ghojogh , Ali Ghodsi , Fakhri Karray , Mark Crowley

Dimensionality reduction techniques are fundamental for analyzing and visualizing high-dimensional data. With established methods like t-SNE and PCA presenting a trade-off between representational power and interpretability. This paper…

Machine Learning · Computer Science 2025-04-25 Erik Bergh

t-SNE and hierarchical clustering are popular methods of exploratory data analysis, particularly in biology. Building on recent advances in speeding up t-SNE and obtaining finer-grained structure, we combine the two to create tree-SNE, a…

Machine Learning · Computer Science 2020-02-14 Isaac Robinson , Emma Pierce-Hoffman

Representing the nodes of continuous-time temporal graphs in a low-dimensional latent space has wide-ranging applications, from prediction to visualization. Yet, analyzing continuous-time relational data with timestamped interactions…

Machine Learning · Computer Science 2024-05-28 Raphaël Romero , Jefrey Lijffijt , Riccardo Rastelli , Marco Corneli , Tijl De Bie

Unsupervised dimensionality reduction is one of the commonly used techniques in the field of high dimensional data recognition problems. The deep autoencoder network which constrains the weights to be non-negative, can learn a low…

Computer Vision and Pattern Recognition · Computer Science 2020-09-18 Anyong Qin , Zhaowei Shang , Zhuolin Tan , Taiping Zhang , Yuan Yan Tang

Projection algorithms such as t-SNE or UMAP are useful for the visualization of high dimensional data, but depend on hyperparameters which must be tuned carefully. Unfortunately, iteratively recomputing projections to find the optimal…

Machine Learning · Computer Science 2021-06-28 Gabriel Appleby , Mateus Espadoto , Rui Chen , Samuel Goree , Alexandru Telea , Erik W Anderson , Remco Chang

The rapid adoption of generative AI has driven an explosion in the size of datasets consumed and produced by AI models. Traditional methods for unstructured data visualization, such as t-SNE and UMAP, have not kept up with the pace of…

Machine Learning · Computer Science 2025-05-22 Brandon Duderstadt , Zach Nussbaum , Laurens van der Maaten

t-SNE has gained popularity as a dimension reduction technique, especially for visualizing data. It is well-known that all dimension reduction techniques may lose important features of the data. We provide a mathematical framework for…

Machine Learning · Computer Science 2026-04-16 Rupert Li , Elchanan Mossel

Dimensionality reduction is often used as an initial step in data exploration, either as preprocessing for classification or regression or for visualization. Most dimensionality reduction techniques to date are unsupervised; they do not…

Machine Learning · Statistics 2020-06-17 Jake S. Rhodes , Adele Cutler , Guy Wolf , Kevin R. Moon

We consider the mobile localization problem in future millimeter-wave wireless networks with distributed Base Stations (BSs) based on multi-antenna channel state information (CSI). For this problem, we propose a Semi-supervised tdistributed…

Machine Learning · Computer Science 2021-11-29 Junquan Deng , Wei Shi , Jian Hu , Xianlong Jiao