Add in overlap of enhacners.

intervene_test/enhancer_percentages.py

+import pandas as pd
+import matplotlib.pyplot as plt
+import numpy as np
+
+
+raw_data = {'Cell': ['H3K4me1', 'H3K27ac', 'GRO-seq'],
+        '1 method': [float((153327)),float((12510)),float((3754))],
+        '2 method': [float((55923)),float((55820)),float((611))],
+        '3 method': [float((609)),float((609)),float((609))]}
+
+df = pd.DataFrame(raw_data, columns = ['Cell', '1 method', '2 method', '3 method'])
+
+# Create a figure with a single subplot
+f, ax = plt.subplots(1, figsize=(10,5))
+
+# Set bar width at 1
+bar_width = 0.5
+
+# positions of the left bar-boundaries
+bar_l = [i for i in range(len(df['1 method']))]
+
+# positions of the x-axis ticks (center of the bars as bar labels)
+tick_pos = [i+(bar_width/2) for i in bar_l]
+
+# Create the total enhancers
+totals = [i+j+k for i,j,k in zip(df['1 method'], df['2 method'], df['3 method'])]
+
+# Create the percentage of the total unmarked enhancers value for each cell was
+meth_1 = [i / float(j) * 100 for  i,j in zip(df['1 method'], totals)]
+
+# Create the percentage of the total H3K4me1 alone enhancers value for each cell
+meth_2 = [i / float(j) * 100 for  i,j in zip(df['2 method'], totals)]
+
+# Create the percentage of the total H3K4me1+, H3K27ac+ enhancers value for each cell
+meth_3 = [i / float(j) * 100 for  i,j in zip(df['3 method'], totals)]
+
+
+N = 3
+ind = np.arange(N)    # the x locations for the groups
+width = 0.5       # the width of the bars: can also be len(x) sequence
+
+p1 = plt.bar(ind, meth_1, width, color='#6DA2DB')
+p2 = plt.bar(ind, meth_2, width,
+             bottom=meth_1,color='#D2D5D4')
+p3 = plt.bar(ind, meth_3, width,
+              bottom=[i+j for i,j in zip(meth_1, meth_2)],color='#D52114')
+
+plt.ylabel('% total enhancers')
+plt.title('Stage')
+plt.xticks(ind, ('H3K4me1', 'H3K27ac', 'GRo-seq'))
+plt.yticks(np.arange(0, 110, 10))
+
+plt.savefig('Enhancer_percentages.png')
+plt.clf()
+
+H3K27ac_enhancers=12510,
+H3K27ac_enhancers&H3K4me1_enhancers=55566,
+H3K4me1_enhancers=153327,
+GRO-seq_enhancers&H3K27ac_enhancers&H3K4me1_enhancers=609,
+GRO-seq_enhancers&H3K27ac_enhancers=254,
+GRO-seq_enhancers=3754,
+GRO-seq_enhancers&H3K4me1_enhancers=357