Demonstrating the utility of flexible sequence queries against indexed short reads with FlexTyper
Fig 5
Explorative uses of FlexTyper.
Two examples of the creative uses of FlexTyper within challenging regions. A) Density plots of counts for the African contigs for the children from the three populations (left to right AFR, EAS, EUR). B) Scatterplot comparing the African contig counts for the AFR child against the EUR child (pink) and the EAS child (teal). C) Heatmap in log-scale for population-specific contigs, clustered by sample similarity (columns) and contig count similarity (rows). D) Heatmap showing the log10 transform of the sum of k-mer counts per gene, with genes as rows, and samples as columns. The two alleles, KIR3DS1 and KIR3DL1 are labeled as rows on the left side. E) Overlayed histograms for the 9 samples, showing the frequency of the FlexTyper k-mer count for the KIR3DS1 allele. F) Overlayed histogram showing the frequency of the FlexTyper k-mer count for the KIR3DL1 allele.