A cross entropy test allows quantitative statistical comparison of t-SNE and UMAP representations

Author:

Roca Carlos P.,Burton Oliver T.,Neumann Julika,Tareen Samar,Whyte Carly E.,Gergelits Vaclav,Veiga Rafael V.,Humblet-Baron Stéphanie,Liston AdrianORCID

Funder

Horizon 2020 Framework Programme

Babraham Institute

Horizon 2020

Biotechnology and Biological Sciences Research Council

European Research Council

European Organisation for Research and Treatment of Cancer

Publisher

Elsevier BV

Subject

Computer Science Applications,Radiology, Nuclear Medicine and imaging,Genetics,Biochemistry, Genetics and Molecular Biology (miscellaneous),Biochemistry,Biotechnology

Reference33 articles.

1. Single cell transcriptomics comes of age;Aldridge;Nat. Commun.,2020

2. Eleven grand challenges in single-cell data science;Lähnemann;Genome Biol.,2020

3. Visualizing Data using t-SNE;van der Maaten;J. Mach. Learn. Res.,2008

4. UMAP: uniform manifold approximation and projection for dimension reduction;McInnes;arXiv,2018

5. Initialization is critical for preserving global data structure in both t-SNE and UMAP;Kobak;Nat. Biotechnol.,2021

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