Added inital code!

+ Added inital code for TUD calculation and figure generation. Two
output files are created from the data in the Hatful et. al 2010
comparative phage genomics paper. This subset of phages will be used for
inital tests of our algorithms.
Changes to make figure generation easier

Also a folder figures, which has TUD line plots for the different phage
clusters and a plot of different hierarchical clustering methods