Source code for the executables needed by these tools can be found in
the genome_diversity directory.

Additionally, you'll need the following python modules:
    matplotlib (we used version 1.1.0) http://pypi.python.org/packages/source/m/matplotlib/
    mechanize  (we used version 0.2.5) http://pypi.python.org/packages/source/m/mechanize/
    networkx   (we used version 1.6)   http://pypi.python.org/packages/source/n/networkx/

And the following software:
    ADMIXTURE  (we used version 1.22)  http://www.genetics.ucla.edu/software/admixture/
    EIGENSOFT  (we used version 3.0)   http://genepath.med.harvard.edu/~reich/Software.htm
    PHAST      (we used version 1.2.1) http://compgen.bscb.cornell.edu/phast/
    QuickTree  (we used version 1.1)   http://www.sanger.ac.uk/resources/software/quicktree/