Extended Data Fig. 6: Comparison of Multiscale PHATE with other clustering tools on real data.

a, Comparison of multiple clustering approaches on flow cytometry data where cell types and subtypes have been identified through gating analysis. Clusters identified by different approaches were compared to gated populations using ARI and F1 score. b, Comparison of multiple clustering techniques at identifying regions with uniform MELD likelihood scores across a range of comparable granularities. c, Comparison of multiple clustering techniques across a range of granularities on flow cytometry data with cell types and subtypes identified as done in a. d, Comparison of multiple clustering techniques across increasing amounts of noise of different types, biological variation and dropout, as done in Extended Data Fig. 3. As done in Extended Data Fig. 3, noise was added to FlowCAP I Normal Donor (ND) dataset with known clusters. Shading represents one standard deviation around mean ARI score for each comparison.