Software and data are available post-publication at the Ramachandran Lab Data Repository. Lab members should contact Sohini Ramachandran for a repository account.

X-chromosomal and autosomal data from the Human Genome Diversity Panel, analyzed in S. Ramachandran, N.A. Rosenberg, M.W. Feldman, and J. Wakeley (2008), "Population differentiation and migration: coalescence times in a two-sex island model for autosomal and X-linked loci". Theor Pop Biol. Vol. 74:291-301

  • readme [txt]
  • Plot of fraction of heterozygous loci out of those loci with non-missing data, from 36 X-linked loci genotyped in 1064 individuals. [pdf]
  • Archive of X-linked and autosomal genotype data files used in this study. [tar archive] [zip archive]
  • Note: the archives generate a new directory when extracted, and also include the readme and plot available above.

pong: fast analysis and visualization of latent clusters in population genetic data

pong is a freely available software package for post-processing output from clustering inference using population genetic data. It combines a a network-graphical approach for analyzing and visualizing membership in latent clusters with an interactive D3.js-based visualization. pong outpaces current solutions by more than an order of magnitude in runtime while providing a user-friendly, interactive visualization of population structure that is more accurate than those produced by current tools. Thus, pong enables unprecedented levels of scale and accuracy in the analysis of population structure from multilocus genotype data.

pong requires Python 2.7 and a modern web browser (e.g. Chrome, Firefox, Safari). pong is not compatible with Internet Explorer. pong is hosted on PyPI and can thus be easily installed with pip by running:

pip install pong