Table 3.

Predicted assignments of cells to donor from iPSCs assignment of cell identify to donors using default settings in demuxlet14

Prediction	NextSeq 500	MGISEQ-2000 (down sampled)	MGISEQ-2000 (down sampled, 98 bp reads)
Unassigned	5552	5403	5379
Correctly assigned	7357	7480	7530

To provide fair comparisons between platforms, data generated from MGI platforms was (i) down sampled to equal read depth as the NextSeq, and (ii) the reads were trimmed to match the same RNA read length as obtained from the NextSeq flowcell.