simATAC: a single-cell ATAC-seq simulation framework

Table 4 Clustering evaluation results. The NMI, AMI, and ARI scores are the cell type clustering results using SnapATAC software. “Real-input data” refers to the clustering results using the input real scATAC-seq data. Metrics for simATAC’s simulated bin-by-cell matrices for different noise levels are also compared presented for each of the Buenrostro2018, Cusanovich2018, and PBMCs datasets

Mean	Standard deviation	NMI	AMI	ARI
Buenrostro2018
0	0	0.71	0.83	0.54
− 0.3	0.3	0.72	0.83	0.54
− 0.4	0.4	0.67	0.78	0.50
Real-input data		0.54	0.62	0.36
Cusanovich2018
0	0	0.96	0.97	0.94
− 0.3	0.3	0.79	0.85	0.69
− 0.4	0.4	0.62	0.71	0.40
Real-input data		0.41	0.46	0.22
PBMCs
0	0	0.78	0.87	0.71
− 0.3	0.3	0.61	0.73	0.47
− 0.4	0.4	0.56	0.67	0.44
Real-input data		0.45	0.54	0.28

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