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t-distributed Stochastic Neighborhood Embedding (t-SNE) is a method for dimensionality reduction and visualization that has become widely popular in recent years. Efficient implementations of t-SNE are available, but they scale poorly to…

Machine Learning · Computer Science 2019-02-26 George C. Linderman , Manas Rachh , Jeremy G. Hoskins , Stefan Steinerberger , Yuval Kluger

$t$-SNE is an embedding method that the data science community has widely Two interesting characteristics of t-SNE are the structure preservation property and the answer to the crowding problem, where all neighbors in high dimensional space…

Machine Learning · Computer Science 2021-09-23 Gaëlle Candel , David Naccache

Neighbor embeddings are a family of methods for visualizing complex high-dimensional datasets using $k$NN graphs. To find the low-dimensional embedding, these algorithms combine an attractive force between neighboring pairs of points with a…

Machine Learning · Computer Science 2024-06-06 Jan Niklas Böhm , Philipp Berens , Dmitry Kobak

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

Stochastic Neighbor Embedding (SNE) algorithms like UMAP and tSNE often produce visualizations that do not preserve the geometry of noisy and high dimensional data. In particular, they can spuriously separate connected components of the…

Machine Learning · Computer Science 2025-09-05 Tristan Luca Saidi , Abigail Hickok , Bastian Rieck , Andrew J. Blumberg

Modern datasets and models are notoriously difficult to explore and analyze due to their inherent high dimensionality and massive numbers of samples. Existing visualization methods which employ dimensionality reduction to two or three…

Machine Learning · Computer Science 2018-08-01 David M. Chan , Roshan Rao , Forrest Huang , John F. Canny

Neighbor Embedding (NE) aims to preserve pairwise similarities between data items and has been shown to yield an effective principle for data visualization. However, even the best existing NE methods such as Stochastic Neighbor Embedding…

Machine Learning · Computer Science 2021-09-15 Zhirong Yang , Yuwei Chen , Denis Sedov , Samuel Kaski , Jukka Corander

Dimensionality reduction is crucial both for visualization and preprocessing high dimensional data for machine learning. We introduce a novel method based on a hierarchy built on 1-nearest neighbor graphs in the original space which is used…

Computer Vision and Pattern Recognition · Computer Science 2022-05-31 M. Saquib Sarfraz , Marios Koulakis , Constantin Seibold , Rainer Stiefelhagen

Federated learning (FL) has rapidly evolved as a promising paradigm that enables collaborative model training across distributed participants without exchanging their local data. Despite its broad applications in fields such as computer…

Machine Learning · Computer Science 2024-10-15 Ziwei Li , Xiaoqi Wang , Hong-You Chen , Han-Wei Shen , Wei-Lun Chao

Stochastic neighbor embedding (SNE) and related nonlinear manifold learning algorithms achieve high-quality low-dimensional representations of similarity data, but are notoriously slow to train. We propose a generic formulation of embedding…

Machine Learning · Computer Science 2012-06-22 Max Vladymyrov , Miguel Carreira-Perpinan

The dimensionality reduction has been widely introduced to use the high-dimensional data for regression, classification, feature analysis, and visualization. As the one technique of dimensionality reduction, a stochastic neighbor embedding…

Computer Vision and Pattern Recognition · Computer Science 2020-12-03 Motoshi Abe , Junichi Miyao , Takio Kurita

We present a new technique called "DSNE" which learns the velocity embeddings of low dimensional map points when given the high-dimensional data points with its velocities. The technique is a variation of Stochastic Neighbor Embedding,…

Machine Learning · Computer Science 2021-03-16 Songting Shi

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

Single-cell sequencing is revolutionizing biology by enabling detailed investigations of cell-state transitions. Many biological processes unfold along continuous trajectories, yet it remains challenging to extract smooth, low-dimensional…

Machine Learning · Statistics 2025-06-30 Rong Ma , Xi Li , Jingyuan Hu , Bin Yu

Learning discriminative image feature embeddings is of great importance to visual recognition. To achieve better feature embeddings, most current methods focus on designing different network structures or loss functions, and the estimated…

Computer Vision and Pattern Recognition · Computer Science 2019-08-15 Suichan Li , Dapeng Chen , Bin Liu , Nenghai Yu , Rui Zhao

Visualization methods based on the nearest neighbor graph, such as t-SNE or UMAP, are widely used for visualizing high-dimensional data. Yet, these approaches only produce meaningful results if the nearest neighbors themselves are…

Machine Learning · Computer Science 2024-06-06 Jan Niklas Böhm , Philipp Berens , Dmitry Kobak

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

Nearest Neighbor Search (NNS) has recently drawn a rapid increase of interest due to its core role in managing high-dimensional vector data in data science and AI applications. The interest is fueled by the success of neural embedding,…

Distributed, Parallel, and Cluster Computing · Computer Science 2022-02-01 Zhen Peng , Minjia Zhang , Kai Li , Ruoming Jin , Bin Ren

Multidimensional scaling is a statistical process that aims to embed high dimensional data into a lower-dimensional space; this process is often used for the purpose of data visualisation. Common multidimensional scaling algorithms tend to…

Machine Learning · Computer Science 2022-02-25 Pierre Lambert , Cyril de Bodt , Michel Verleysen , John Lee

Node embeddings are a paradigm in non-parametric graph representation learning, where graph nodes are embedded into a given vector space to enable downstream processing. State-of-the-art node-embedding algorithms, such as DeepWalk and…

Machine Learning · Computer Science 2025-11-25 Jan Niklas Böhm , Marius Keute , Alica Guzmán , Sebastian Damrich , Andrew Draganov , Dmitry Kobak
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