A Genealogical Interpretation of Principal Components Analysis (original) (raw)
Figure 3
The effect of uneven sampling on PCA projection.
PCA projection of samples taken from a set of nine populations arranged in a lattice, each of which exchanges migrants at rate per generations with each adjoining neighbour, leads to a recovery of the migration-space if samples are of equal size (A), or a distortion of migration-space if populations are not equally represented (B,C). In each part the left-hand panel shows the analytical solution (the area of each point represents the relative sample size) with migration routes illustrated while the right-hand panel shows the result of a simulation with a total sample size of 180 and 10,000 independent SNP loci. All examples are for .