Table 1.

Sequencing run summary of the in-house dataset

	Run 1	Run 2
Quality	Low	High
# Libraries	6	6
Clusters PF (%)	33.05	93.9
Q30 (%)	70.9	82.6
Total Reads	112993193	197600946
Valid Reads	70826303 (63%)	180526539 (91%)
# Cells (expected)	1800	1800
# Cells (ddSeeker)	≈3000	≈3000

Valid reads are reads with valid barcodes and UMI. Expected number of cells is based on cell capture efficiency, as declared by Bio-Rad