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Schematic of experimental design. Human induced pluripotent stem cells (hiPSC) undergoing cortical neuronal differentiation were dissociated into a single-cell suspension and processed to generate single-cell full-length cDNA. Full-length cDNA was sequenced using both short and long-read methods and barcode whitelists generated using Cell Ranger, BLAZE, and Sockeye followed by gene and isoform quantification and clustering. Three nanopore sequencing runs were performed on the same cDNA sample, a higher-depth PromethION run, a lower-depth GridION run, and a higher accuracy run using the Q20 protocol on the GridION.

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