Fig. 1.

Schematic representing two extreme scenarios for tagged reads generated from the same molecule without any PCR duplicates (left) and with PCR duplicates (right). Row 1: the full cDNA sequence after reverse transcription; row 2: the cDNA molecules after the first round of PCR amplification, fragmentation, and adapter ligation; row 3: the fragmented products after a second round of PCR with arrows indicating the mRNA tags and CB + UMI reads; row 4: the sequencing reads after alignment; and row 5: collapsing of the aligned mRNA tags into long collapsed molecules. Each colored arrow represents the sequencing tag and the cell barcode