Fig. 3: Effect of parasitemia on sequencing performance measures. | Nature Communications

Fig. 3: Effect of parasitemia on sequencing performance measures.

From: Flexible and cost-effective genomic surveillance of P. falciparum malaria with targeted nanopore sequencing

Fig. 3

Scatter plots display the effect that parasitemia (x-axis) has on the NOMADS8 (left), NOMADS16 (middle) and NOMADS16 amplicon panel with hrp genes ignored (right). Three measures of sequencing performance are shown (y-axis): “Normalised Sample Throughput", which is the number of reads generated for a sample, divided by the mean number of reads per sample for the sequencing run (top row); “P.f. Mapping Percentage", which is the percentage of all reads from a sample that mapped to P. falciparum (middle row); and the “Amplicon Coverage Fold-difference" which, for a given sample, is the ratio of the number of reads overlapping the highest abundance amplicon, divided by the number of reads overlapping the lowest abundance amplicon (bottom row). Each point is either an mock sample (grey), or a field sample sequenced in Oxford (green) or Zambia (orange). Samples sequenced on a R9.4.1 Flongle Flow Cell (FLG001) are indicated with triangles; R9.4.1 MinION Flow Cell (MIN106D), with circles; R10.4.1 MinION Flow Cell (MIN114D), with squares. Median values are shown as horizontal lines and Pearson correlation coefficient is given in top left. Note that parasitemia data is missing for 16 field samples.

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