Updated venn diagram.

scripts/Reports.py

@@ -195,10 +195,20 @@ class ReportTools:
         plt.savefig(plot_file, dpi=300)
         plt.close()
 
-    def venn_overlap(self, gene_lists, out_venn):
+    def venn_overlap(self, gene_lists, out_venn):   #maybe add known genes?
         """Compare the genes detected by GISTIC and those by RUBIC."""
-        venn2([set(gene_lists[0]), set(gene_lists[1])], set_labels = ('GISTIC2', 'RUBIC'))
-        plt.savefig(out_venn)
+        plt.subplots(figsize=(7, 7))
+        c = venn2([set(gene_lists[0]), set(gene_lists[1])], set_labels = ('GISTIC2', 'RUBIC'))
+        c.get_patch_by_id('10').set_color('#5975A4')
+        c.get_patch_by_id('01').set_color('#5F9E6E')
+        c.get_patch_by_id('10').set_edgecolor('#4c4c4c')
+        c.get_patch_by_id('01').set_edgecolor('#4c4c4c')
+        c.get_patch_by_id('10').set_alpha(1)
+        c.get_patch_by_id('01').set_alpha(1)
+        c.get_patch_by_id('11').set_color('#857AAA')
+        c.get_patch_by_id('11').set_edgecolor('none')
+        c.get_patch_by_id('11').set_alpha(1)
+        plt.savefig(out_venn, dpi=300)
         plt.close()
 
     def compare_overlapping_regions(self, parsed_results, biomart_file, overlap_file):