PCA scatterplots misleadingly indicate clusters in Kuehneotherium teeth data, whereas t-SNE and persistent homology detect a ring-like one-dimensional manifold, backed by a generative model of uniform sampling from a unit circle whose cosine distances follow an arcsine distribution.
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Beyond Explained Variance: A Cautionary Tale of PCA
PCA scatterplots misleadingly indicate clusters in Kuehneotherium teeth data, whereas t-SNE and persistent homology detect a ring-like one-dimensional manifold, backed by a generative model of uniform sampling from a unit circle whose cosine distances follow an arcsine distribution.