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This paper provides a rigorous mathematical analysis of the t-SNE algorithm's energy landscape, demonstrating how discrete symmetries in feature and embedding spaces generate infinite families of critical points that lead to spurious clustering. By identifying these topological breaks, the work offers essential theoretical clarity on why this widely used dimensionality reduction technique often fails to preserve underlying data structures.
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On the Abundance of Critical Points of the t-SNE Energy

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arXiv:2609.04379v1 Announce Type: new Abstract: This paper considers the energy landscape of the t-SNE algorithm. While this algorithm has enjoyed broad adoption, the non-convexity of the associated energy has made it difficult to rigorously understand what the algorithm captures in many settings. In particular, a number of well-known numerical examples, several of which are reproduced in this article, suggest a complicated energy landscape with many local minimizers that do not respect the topology or clustering structure of the underlying data. This work seeks to provide first steps towards a rigorous explanation of these phenomena. Specifically, for a general family of energies, which include both the original t-SNE algorithm and recently identified large data limits, and for densities in feature space which obey a continuous symmetry, we construct infinite families of distinct critical points. These critical points are based upon identifying pairs of discrete symmetries, one in the original feature space and the other in the target embedding space, which are preserved under gradient dynamics. These critical configurations exhibit many characteristics, such as topology breaking and spurious clustering, which are often observed empirically. Finally, numerical and analytical examples are given throughout as a means of illustrating the approach.

Abstract:This paper considers the energy landscape of the t-SNE algorithm. While this algorithm has enjoyed broad adoption, the non-convexity of the associated energy has made it difficult to rigorously understand what the algorithm captures in many settings. In particular, a number of well-known numerical examples, several of which are reproduced in this article, suggest a complicated energy landscape with many local minimizers that do not respect the topology or clustering structure of the underlying data. This work seeks to provide first steps towards a rigorous explanation of these phenomena. Specifically, for a general family of energies, which include both the original t-SNE algorithm and recently identified large data limits, and for densities in feature space which obey a continuous symmetry, we construct infinite families of distinct critical points. These critical points are based upon identifying pairs of discrete symmetries, one in the original feature space and the other in the target embedding space, which are preserved under gradient dynamics. These critical configurations exhibit many characteristics, such as topology breaking and spurious clustering, which are often observed empirically. Finally, numerical and analytical examples are given throughout as a means of illustrating the approach.

Machine Learning (cs.LG); Analysis of PDEs (math.AP); Statistics Theory (math.ST)

arXiv:2609.04379 [cs.LG]

(or arXiv:2609.04379v1 [cs.LG] for this version)

https://doi.org/10.48550/arXiv.2609.04379 Focus to learn more arXiv-issued DOI via DataCite (pending registration)

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