Figure 6. Visualizations for downstream analysis.

The source data are from 148,649 cells from the BBBC021 data set¹⁰⁸. (a) A heat map of the distance matrix shows the correlations between all pairs of samples, by using sample-level data (described in 'Measuring profile similarity'). (b–d) The cellular heterogeneity landscape can be visualized from single-cell data by using PCA (b), tSNE scatter plots (c) or a SPADE tree (d). In these examples, single-cell data points are colored according to a single-cell shape feature 'cytoplasm area shape extent' (red, high; blue, low). (e) A separate visualization for each treatment can assist in interpreting phenotypic changes induced by sample treatments. A constant SPADE tree is shown, and treatment-induced shifts in the number of cells in each 'node' of the tree are shown by the color scale depicted. The first three treatments are known to have a similar functional effect (Aurora kinase inhibition), and they exhibit similar cell distributions on the SPADE tree. The remaining three treatments are known to induce protein degradation, inducing cell distributions that differ from the first three.