Metric comparison using Sleepwalk. All four panels now show the same embedding: a UMAP visualization of the E13.5 sample of murine cerebellum. The cells are now colored based on four different metrics: Euclidean distance based directly on the normalized and logarithmized genes’ expressions (A); Euclidean distance in the space spanned by the first 50 principal components of a PCA performed using the variable genes (B); diffusion distance based directly on the genes’ expression (C) or on the first 50 principal components (D). The red arrow shows the current mouse position, which is on the intersection of GABAergic and glutamatergic lineages. Color scales were adjusted so that they roughly stretch along the entire selected branch. The spread of coloring onto the other developmental branch shows how good the metric is in separating the two lineages.