Detecting inversions with PCA in the presence of population structure
Fig 5
Analysis of the 2R chromosome arm of the 150 Anopheles samples from Burkina Faso (all samples, 81 Anopheles gambiae samples, and 69 Anopheles coluzzii samples). (a—c) PCA of samples, clustered with k-means, and colored by cluster. Manhattan plots visualizing p-values from association tests against sample cluster IDs (d—f) and PC coordinates (g—k, one Manhattan plot per PC).