added Cytoscape requirements, and changed all RCy code chunks to eval=FALSE
added a note about messed up graphics
added purling the code to a .R file
added comment on embedding plots
cut out some cells that were not useful
added histograms, and changed title for density plot
added condition of values being less than 5000
added the set of 4 histograms in a way that allows easy comparison
saving figures
added license information
new versions of R, md, html