Figure 2: Mapping accuracy for vg against the human genome. | Nature Biotechnology

Figure 2: Mapping accuracy for vg against the human genome.

From: Variation graph toolkit improves read mapping by representing genetic variation in the reference

Figure 2

(a) ROC curves parameterized by mapping quality for 10M read pairs simulated from NA24385 as mapped by bwa mem, vg with the 1000GP 1% allele frequency threshold pangenome reference, and vg with a linear reference, using single-end (se) or paired-end (pe) mapping. Left: all reads, middle: reads simulated from segments matching the linear reference, Right: reads simulated from segments different from the linear reference. (b) The mean alternate allele fraction at heterozygous variants previously called19 in NA24385 as a function of deletion or insertion size (SNPs at 0). Error bars are ± 1 s.e.m.

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