{"about":{"site":"https://codewithpapers.app","non_affiliation":"Code with Papers and Syntology are not affiliated with, endorsed by, or sponsored by Papers with Code, Meta, or the pwc-archive mirror.","licence":"CC BY-SA 4.0","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","attribution":"https://codewithpapers.app/attribution","modified":"archive material modified by Syntology; see the attribution page"},"url":"/paper/spectral-overlap-and-a-comparison-of","title":"Spectral Overlap and a Comparison of Parameter-Free, Dimensionality Reduction Quality Metrics","arxiv_id":"1907.01974","date":"2019-07-03","proceeding":null,"authors":["Jonathan Johannemann","Robert Tibshirani"],"abstract":"Nonlinear dimensionality reduction methods are a popular tool for data scientists and researchers to visualize complex, high dimensional data. However, while these methods continue to improve and grow in number, it is often difficult to evaluate the quality of a visualization due to a variety of factors such as lack of information about the intrinsic dimension of the data and additional tuning required for many evaluation metrics. In this paper, we seek to provide a systematic comparison of dimensionality reduction quality metrics using datasets where we know the ground truth manifold. We utilize each metric for hyperparameter optimization in popular dimensionality reduction methods used for visualization and provide quantitative metrics to objectively compare visualizations to their original manifold. In our results, we find a few methods that appear to consistently do well and propose the best performer as a benchmark for evaluating dimensionality reduction based visualizations.","url_abs":"https://arxiv.org/abs/1907.01974v2","url_pdf":"https://arxiv.org/pdf/1907.01974v2.pdf","source":{"archive":"pwc-archive (Hugging Face), CC BY-SA 4.0","snapshot":"2025-07-28","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","row_kind":"abstracts"},"code_links":[{"paper_slug":"spectral-overlap-and-a-comparison-of","repo_url":"https://github.com/JonathanJohann/lmds","is_official":1,"mentioned_in_paper":1,"mentioned_in_github":0,"framework":"none","reach":null}],"tasks":[{"task_slug":"dimensionality-reduction","task_name":"Dimensionality Reduction"},{"task_slug":"hyperparameter-optimization","task_name":"Hyperparameter Optimization"}],"methods":[],"datasets_introduced":[],"methods_introduced":[],"results":[],"syntology":{"syntology_url":null,"atlas_url":null,"mcp":null,"developers":"https://syntology.ai/developers"},"arxiv_metadata":null,"syntology_extracted_results":null}