Fig. 2: Coverage profile of amplicon targets. | Nature Microbiology

Fig. 2: Coverage profile of amplicon targets.

From: Drug resistance and vaccine target surveillance of Plasmodium falciparum using nanopore sequencing in Ghana

Fig. 2: Coverage profile of amplicon targets.

a, Leucodepleted VB samples, sequenced with kit 12 chemistry/R10.4 flow cells (N = 109 samples). The y axis shows median number of reads covering each amplicon target per sample for each of the MinION runs for clinical samples. Median coverages for the crt, dhfr, dhps, mdr1, kelch13, csp and msp1 amplicons were 8,682, 12,141, 2,772, 8,369, 5,727, 1,552 and 1,957, respectively. b, DBS samples (N = 87) sequenced with kit 14 chemistry/R10.4.1 flow cells. In both figures, positive controls and sample duplicates were excluded. Coverage data were derived from BEDTools produced in the ‘nano-rave’ pipeline. Note that the msp1 PCR was only included in the leucodepleted VB samples from Navrongo (70/109), so coverage is only shown for these samples. Coverage was higher for the DBS samples; however, this may reflect using the newer ONT chemistry and flow cells.

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