Harappa Ancestry Project

Let's zoom into the PCA plots of Reference 3 (more here) and look at how the different South Asian populations line up.

First the 3-D plot of eigenvectors 1, 2 & 3 with principal component 1 being vertical (and axis of rotation).

And now principal components 2, 3 & 4 (with the vertical axis of rotation being 2):

Note that I performed PCA on the whole set of reference 3, so you are looking at the axes of variation of all populations, not just South Asians.