Calibrating dimension reduction hyperparameters in the presence of noise
Fig 6
Trustworthiness vs. perplexity (high-dimensional clusters sd = 3).
t-SNE outputs were calculated with varying perplexities. Local performance was measured via trustworthiness. The trustworthiness-maximizing perplexity was 55 when comparing against the original data, while the trustworthiness-maximizing perplexity was 60 when comparing against just the signal.