Figure 5.

Combining hybrid clustering and Warp Factor highlights clusters with distinct markers in UMAP representations

(A) UMAPs highlighting a single high α cluster with the indicated top marker gene (COL6A1 and COL6A2) in different replicates and doses of WM989 cells treated with vemurafenib.¹¹ Representations are stratified by α and Warp Factor. Gray points represent cells outside the high α cluster. Colors reflect the top marker gene of the high α cluster (purple) or the contributing transcriptome clusters. Contributing transcriptome (α = 0) clusters were grouped as “small contributors” if fewer than 10 cells were present in the high α cluster of interest.

(B) UMAPS as in (A) for the day 2 in vitro hematopoiesis data¹² highlighting high α clusters marked by the granulocyte-enriched markers Mpo and Prtn3 (top) and Sankey diagram depicting marker positivity at both clustering levels, nodes are annotated with top cluster markers. “Small contributors” indicates all contributing transcriptome clusters that contributed fewer than 10 cells to the high α cluster.