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Fig. 1 | Genome Medicine

Fig. 1

From: Single-cell TCRseq: paired recovery of entire T-cell alpha and beta chain transcripts in T-cell receptors from single-cell RNAseq

Fig. 1

Schematic overview of scTCRseq pipeline. a Input fastq files are BLAST-aligned to custom reference TCR alpha and beta variable and constant regions genes. b Consensus-driven multiple alignment to candidate genes is performed to create V and C gene sequence “contigs.” Correct alleles are inferred from the consensus. c Each consensus V region is concatenated to its corresponding C region consensus with a gap to create a scaffold to perform gap-filling. d GapFiller finds read pairs of which one member matches within a sequence region and the second member falls (partially) within the gap to join the scaffolds and recover full alpha or beta chains if successful

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Genome Medicine

ISSN: 1756-994X

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