SCITUNA: single-cell data integration tool using network alignment

BMC Bioinformatics

Table 2 Scores of individual metrics as well as their aggregation i.e., overall score, biological conservation, and batch correction (indicated in bold) for 120 batch pairs within the Lung dataset for SCITUNA, Scanorama, fastMNN, Seurat, and SAUCIE

	Overall score	Biological conservation	NMI cluster/label	ARI cluster/label	Cell type ASW	cLISI	HVG conservation	1-Over correction	CC conservation	Isolated label F1	Isolated label silhouette	Batch correction	Graph connectivity	iLISI	Batch ASW	PCR batch
SCITUNA	0.694	0.707	0.772	0.694	0.579	0.967	0.687	0.842	0.801	0.493	0.524	0.676	0.928	0.243	0.807	0.727
Scanorama	0.662	0.691	0.777	0.712	0.591	0.963	0.53	0.837	0.79	0.486	0.53	0.62	0.914	0.172	0.739	0.655
fastMNN	0.666	0.67	0.785	0.71	0.589	0.985	0.323	0.843	0.771	0.498	0.527	0.661	0.934	0.212	0.818	0.681
Seurat	0.691	0.676	0.739	0.645	0.556	0.958	0.665	0.807	0.733	0.455	0.523	0.713	0.922	0.289	0.812	0.827
SAUCIE	0.618	0.548	0.512	0.343	0.51	0.94	0.484	0.595	0.671	0.343	0.539	0.722	0.767	0.56	0.618	0.946

ISSN: 1471-2105