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+#Roary plots
+Marco Galardini (marco@ebi.ac.uk) has prepared an ipython notebook which can take in a tree (newick) and the gene presence and absence spreadsheet, and generate some nice plots.
+
+The dependancies are:
+- python (2 or 3)
+- Biopython
+- numpy
+- pandas
+- matplotlib
+- seaborn
+
+Usage:
+```
+python roary_plots.py my_tree.tre gene_presence_absence.csv
+```
+
+The images it produces are:
+* A pan genome frequency plot
+* A presence and absence matrix against a tree
+* A piechart of the pan genome, breaking down the core, soft core, shell and cloud.