Table 1.

Quantification of the agreement of the cell-to-clone assignment with gene expression profiles of the cells

Subject	Type	Method	Dunn index	RMSSTD	CH	Connectivity
S144	Multiplet	CACTUS	0.066	57.0	15.6	898.9
		cardelino	0.057	77.1	3.2	1250.9
	Singleton	CACTUS	0.054	110.9	3.2	839.5
		cardelino	0.052	109.5	1.9	711.9
S12118	Multiplet	CACTUS	0.098	79.2	11.9	169.6
		cardelino	0.084	96.2	10.0	495.0
	Singleton	CACTUS	0.085	105.4	4.1	285.4
		cardelino	0.092	99.4	3.9	396.5

Bolded values indicate which method (CACTUS or cardelino) obtained better agreement for the given subject and type of cluster that the cells assigned to the clones come from. High values of the Dunn index and the Calinski-Harabasz (CH) index, as well as low values of the root mean square standard deviation (RMSSTD) and connectivity quantify to what extent the gene expression of the cells is homogeneous inside each clone and differs between the clones