Taxon classification#
In this analysis, we use three separate methods (AIMs, PCA, XGboost) to assign taxon to amplicon samples. For the latter two methods, we integrate data from over 7000 public accessible WGS samples from the Vector Observatory.
Accurate species identification is essential for mosquito surveillance as different members of the Anopheles gambiae complex have distinct ecological niches and vectorial capacities (Coetzee et al., 2013).
Ancestry informative marker heatmap#
By cohort#
Ancestry Informative Markers (AIMs) are genomic variants with large allele frequency differences between populations, making them useful for species identification and detecting hybridization (Rosenberg et al., 2003).