--- a
+++ b/code/visualize/vis_quartiles.py
@@ -0,0 +1,221 @@
+## Draws growth curves from Northshore and CDC data
+
+##### SETUP ######
+
+import pickle
+import numpy as np
+import pandas as pd
+import matplotlib.pyplot as plt
+import math
+import matplotlib
+
+###################
+
+### VARIABLES ###
+
+## Age intervals
+## Float instability created errors, so corrected the following trunction 
+intervals = np.trunc(np.concatenate((np.array([0.01]),np.arange(.05,.2,.05),np.arange(.4,2,.2), np.arange(2,20,.5)))*100)/100
+
+
+## Percentiles to display
+percentiles = np.array([10, 50, 75, 85, 90, 95, 97])
+
+## Age range to display on plot
+x_age_min = 2
+x_age_max = 18.5
+
+## Set to True to plot age vs. bmi, False to plot age vs. ht and age vs. wt
+plot_bmi_only = True
+
+## Display CDC data on plots
+display_cdc = True
+
+## Plot text size
+font_size = 14
+
+#################
+
+## Color generator with maximum spacing between colors
+## from: http://stackoverflow.com/questions/10254207/color-and-line-writing-using-matplotlib
+import colorsys
+
+def get_color(color):
+    for hue in range(color):
+        hue = 1. * hue / color
+        col = [int(x) for x in colorsys.hsv_to_rgb(hue, 1.0, 230)]
+        yield "#{0:02x}{1:02x}{2:02x}".format(*col)
+
+#################
+
+## Open pickle file, saved from bmi_aggregate.py
+df_aggregate = pickle.load(open('../../data/pkl/BMI_aggregate_percentiles.pkl', 'rb'))
+
+## Create dictionary of race/ethnicity and gender to plotting characters
+## For race/ethnicity, select legend label and line color
+#race_ethnicity_dict = {'Caucasian':('White','r'), \
+#            'African American':('Black','g'), \
+#            'Hispanic/Latino':('Hisp', 'b'), \
+#            'Asian':('Asian','c'), \
+#            'American Indian or Alaska Native':('Native Am.','m'), \
+#            'Other':('Other','y')}
+#color not used: k
+
+## Remove data that wouldn't be plotted (because outside interested age range)
+df_aggregate = df_aggregate[df_aggregate["age"] >= x_age_min]
+df_aggregate = df_aggregate[df_aggregate["age"] <= x_age_max]
+
+## Only use data aggregated across all races
+df_aggregate = df_aggregate[df_aggregate["race_ethnicity"] == 'All']
+
+#### CDC DATA ADD ####
+df_cdc = pd.read_csv("../../data/csv/CDC_data.csv")
+
+df_cdc = df_cdc[df_cdc["age"] >= x_age_min]
+df_cdc = df_cdc[df_cdc["age"] <= x_age_max]
+#################
+
+## Group aggregate information by gender and race/ethnicity
+#grouped = df_aggregate.groupby([header["gender"],header["race_ethnicity"]])
+grouped = df_aggregate.groupby(["gender"])
+
+#### CDC ADD ####
+grouped_cdc = df_cdc.groupby(["gender"])
+#################
+
+## Initialize dictionary to save figure handles
+fig_dict = dict()
+
+## Two figures: one for males, one for females
+fig_list = ['M','F']
+
+## For each figure,
+for char in fig_list:
+    ## Initialize dictionary to save axis handles
+    fig_dict[char] = dict()
+
+    ## Create figure
+    fig_dict[char]['fig'] = plt.figure()
+
+    ## Save axis handles
+    if not plot_bmi_only:
+        fig_dict[char]['ax_age_ht'] = fig_dict[char]['fig'].add_subplot(121)
+        fig_dict[char]['ax_age_wt'] = fig_dict[char]['fig'].add_subplot(122)
+    else:
+        fig_dict[char]['ax_age_bmi'] = fig_dict[char]['fig'].add_subplot(111)
+
+if not plot_bmi_only:
+    attribute_pairs = [("age","ht"),("age","wt")]
+else:
+    attribute_pairs = [("age","bmi")]
+        
+### Iterate through all gender groups, plotting group percentiles
+for name, group in grouped:
+    name_gender = name
+    #name_race_ethnicity = name[1]
+
+    for x_attribute, y_attribute in attribute_pairs:
+        color = get_color(len(percentiles))
+        
+        for percentile in percentiles:
+            x_name = x_attribute
+            y_name = y_attribute + "_" + str(percentile)
+            ax_name = 'ax_'+x_attribute+'_'+y_attribute
+            cat_label = str(percentile) + "%"
+            cat_linewidth = 2.0
+            cat_color = next(color)
+            
+            if percentile == 85:
+                cat_linewidth = 2.0
+                if plot_bmi_only:
+                    cat_label = cat_label + ", Overweight"
+                cat_85_color = cat_color
+            elif percentile == 95:
+                cat_linewidth = 2.0
+                if plot_bmi_only:
+                    cat_label = cat_label + ", Obese"
+                cat_95_color = cat_color
+
+            line = group.plot(x_name, y_name, ax=fig_dict[name_gender][ax_name], color=cat_color, label=cat_label, linewidth=cat_linewidth, ls="-")            
+
+### Iterate through all gender groups, plotting CDC percentiles
+for name, group in grouped:
+    name_gender = name
+    #name_race_ethnicity = name[1]
+
+    for x_attribute, y_attribute in attribute_pairs:
+        color = get_color(len(percentiles))
+        for percentile in percentiles:
+            x_name = x_attribute
+            y_name = y_attribute + "_" + str(percentile)
+            ax_name = 'ax_'+x_attribute+'_'+y_attribute
+            cat_color = next(color)
+            cat_linewidth = 2.0
+            cat_label = str(percentile) + "% in subset"
+            
+            if display_cdc:
+                line = grouped_cdc.get_group(name_gender).plot(x_name, y_name, ax=fig_dict[name_gender][ax_name], color=cat_color, linewidth=cat_linewidth, ls="--")
+            
+## For each figure, 
+for char in fig_list:
+    ## Set correct x, y axis labels
+    if not plot_bmi_only:
+        fig_dict[char]['ax_age_ht'].set_ylabel("Height (inches)")
+        fig_dict[char]['ax_age_wt'].set_ylabel("Weight (pounds)")
+        fig_dict[char]['ax_age_ht'].set_xlabel("Age (years)")
+        fig_dict[char]['ax_age_wt'].set_xlabel("Age (years)")
+        if not display_cdc:
+            fig_dict[char]['ax_age_ht'].set_ylim([20, 80])
+        fig_dict[char]['ax_age_ht'].set_xlim([x_age_min, x_age_max])
+        fig_dict[char]['ax_age_wt'].set_xlim([x_age_min, x_age_max])
+    else:
+        fig_dict[char]['ax_age_bmi'].set_ylabel("BMI")
+        fig_dict[char]['ax_age_bmi'].set_xlabel("Age (years)")
+        fig_dict[char]['ax_age_bmi'].set_xlim([x_age_min, x_age_max])
+
+    ## Add adult overweight/obesity definitions
+    #fig_dict[char]['ax_age_bmi'].axhline(y=18.5, linewidth=4, color='r')
+    #fig_dict[char]['ax_age_bmi'].axhline(y=25, linewidth=4, color='r')
+    #fig_dict[char]['ax_age_bmi'].axhline(y=30, linewidth=4, color='r')
+
+    #fig_dict[char]['ax_age_bmi'].plot([19.25, 20], [25, 25], linewidth=4, color=cat_85_color, ls=":", label="Adult Overweight (by definition)")
+    #fig_dict[char]['ax_age_bmi'].plot([19.25, 20], [30, 30], linewidth=4, color=cat_95_color, ls=":", label="Adult Obese (by definition)")            
+    #fig_dict[char]['ax_age_bmi'].plot([19.25, 19.25], [25, 30], 'D')
+
+    ## Get legend handles and labels
+    if not plot_bmi_only:
+        handles, labels = fig_dict[char]['ax_age_ht'].get_legend_handles_labels()
+    else:
+        handles, labels = fig_dict[char]['ax_age_bmi'].get_legend_handles_labels()
+
+    ## Invert legend order
+    h1 = zip(handles, labels)
+    h1 = filter(lambda (x, y): y != "age", h1)
+    h1 = h1[::-1]
+    handles, labels = zip(*h1)
+    handles = list(handles)
+    labels = list(labels)
+    
+    if not plot_bmi_only:
+        fig_dict[char]['ax_age_ht'].legend(handles, labels, loc='top left', borderaxespad=0.)
+    else:
+        fig_dict[char]['ax_age_bmi'].legend(handles, labels, loc='top left', borderaxespad=0.)
+
+    ## Set figure title
+    fig_dict[char]['fig'].patch.set_facecolor('white')
+    gen_dict = dict({('M', 'Male'),('F','Female')})
+    fig_dict[char]['fig'].suptitle('Aggregate Patient Statistics, ' + gen_dict[char], fontsize=font_size)
+
+    ## Set figure font sizes
+    if not plot_bmi_only:
+        ax_list = [fig_dict[char]['ax_age_wt'], fig_dict[char]['ax_age_ht']]
+    else:
+        ax_list = [fig_dict[char]['ax_age_bmi']]
+        
+    for ax in ax_list:
+        for item in ([ax.title, ax.xaxis.label, ax.yaxis.label] + \
+                 ax.get_xticklabels() + ax.get_yticklabels()):
+            item.set_fontsize(font_size)
+
+## Show final figures
+plt.show()