boxplot.py

import numpy as np
import pandas as pd

from bokeh.plotting import figure, show, output_file

# generate some synthetic time series for six different categories
cats = list("abcdef")
yy = np.random.randn(2000)
g = np.random.choice(cats, 2000)
for i, l in enumerate(cats):
    yy[g == l] += i // 2
df = pd.DataFrame(dict(score=yy, group=g))

# find the quartiles and IQR for each category
groups = df.groupby('group')
q1 = groups.quantile(q=0.25)
q2 = groups.quantile(q=0.5)
q3 = groups.quantile(q=0.75)
iqr = q3 - q1
upper = q3 + 1.5*iqr
lower = q1 - 1.5*iqr

# find the outliers for each category
def outliers(group):
    cat = group.name
    return group[(group.score > upper.loc[cat]['score']) | (group.score < lower.loc[cat]['score'])]['score']
out = groups.apply(outliers).dropna()

# prepare outlier data for plotting, we need coordinates for every outlier.
if not out.empty:
    outx = []
    outy = []
    for keys in out.index:
        outx.append(keys[0])
        outy.append(out.loc[keys[0]].loc[keys[1]])

p = figure(tools="", background_fill_color="#efefef", x_range=cats, toolbar_location=None)

# if no outliers, shrink lengths of stems to be no longer than the minimums or maximums
qmin = groups.quantile(q=0.00)
qmax = groups.quantile(q=1.00)
upper.score = [min([x,y]) for (x,y) in zip(list(qmax.loc[:,'score']),upper.score)]
lower.score = [max([x,y]) for (x,y) in zip(list(qmin.loc[:,'score']),lower.score)]

# stems
p.segment(cats, upper.score, cats, q3.score, line_color="black")
p.segment(cats, lower.score, cats, q1.score, line_color="black")

# boxes
p.vbar(cats, 0.7, q2.score, q3.score, fill_color="#E08E79", line_color="black")
p.vbar(cats, 0.7, q1.score, q2.score, fill_color="#3B8686", line_color="black")

# whiskers (almost-0 height rects simpler than segments)
p.rect(cats, lower.score, 0.2, 0.01, line_color="black")
p.rect(cats, upper.score, 0.2, 0.01, line_color="black")

# outliers
if not out.empty:
    p.circle(outx, outy, size=6, color="#F38630", fill_alpha=0.6)

p.xgrid.grid_line_color = None
p.ygrid.grid_line_color = "white"
p.grid.grid_line_width = 2
p.xaxis.major_label_text_font_size="12pt"

output_file("boxplot.html", title="boxplot.py example")

show(p)