Python: boxplot dataframe with multi-index

Question

I am trying to create a boxplot, where on the x-axis I will refer to the two columns of the dataframe, while on y-axis I will show values of the 3rd column.

Let me refer to an example dataframe:

  Lvl1  Lvl2  value
0    A     1      1
1    A     2      2
2    A     1      3
3    B     2      4
4    B     1      5
5    B     2      6

Now, I want to have boxplots for the groups corresponding to Lvl1 and Lvl2. For example for group represented by (Lvl1 = A, Lvl2 = 1) boxplot would be calculated of values of {1,3}.

I know I can create a new column like Lvl0 which would be something like Lvl1 + Lvl2, but is there a way to create a boxplot without such operation?

On the following code:

import pandas as pd
import matplotlib.pyplot as plt

dataset = pd.DataFrame(
    {'Lvl1': ['A', 'A', 'A', 'B', 'B', 'B'], 'Lvl2': [1, 2, 1, 2, 1, 2], 'value': [1, 2, 3, 4, 5, 6]})
grouped = dataset.groupby(['Lvl1', 'Lvl2'])
grouped.boxplot()
plt.show()

I get an error:
KeyError: "None of [Index(['A', 1], dtype='object')] are in the [index]"

Thank you in advance!

vladislavAks · Accepted Answer · 2021-11-26 13:07:30Z

1

Try to use seaborn for an easier solution. I think it was answered here: Grouping boxplots in seaborn when input is a DataFrame

With your data:

import seaborn as sns
import pandas as pd

data = pd.DataFrame({'lvl1': ['A', 'A', 'A', 'B', 'B', 'B'], 
                     'lvl2': [1, 2, 1, 2, 1, 2], 
                     'value': [1, 2, 3, 4, 5, 6]})

df_long = pd.melt(data, "lvl1", var_name="lvl2", value_name="result")

sns.boxplot(x="lvl1", hue="lvl2", y="result", data=df_long)

We get:

If you need more levels, try to combine plots with sns.FacetGrid (https://seaborn.pydata.org/generated/seaborn.FacetGrid.html). Here I propose using sns.catplot:

data = pd.DataFrame({'lvl1': ['A', 'A', 'A', 'B', 'B', 'B', 'A', 'B'], 
                 'group': ['1', '2', '1', '2', '1', '2', '2', '1'], 
                 'has_something': [True, False, False, True, True, False, True, False], 
                 'before': [3, 4, 5, 5, 3, 4, 2, 6],
                 'after': [1, 2, 3, 4, 5, 6, 2, 3], 
                 'baseline': [1, 0, 0, 1, 1, 0, 0, 1]})

df = pd.melt(data, ["lvl1", 'group', 'has_something'], value_name="result")

sns.catplot(data=df, x='lvl1', y='result',
col='group', kind='box', hue='variable', col_wrap=2, margin_titles=True)

And result here:

In order to include 'has_something' variable to the plot, you can use FacetGrid or separate data by 'has_something' and make two plots with different filtered data.

edited Nov 26, 2021 at 13:07

answered Nov 24, 2021 at 17:15

vladislavAks

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2 Comments

Michał Player Over a year ago

Thank you. How could I extend it if there would be more then 2 levels? I don't see exactly how melt could help us here.

vladislavAks Over a year ago

I added part about more levels to the answer. Hope it would help.

Tyler2P · Accepted Answer · 2021-11-25 02:59:45Z

0

You can do it through seaborn. Following code works for me on your data:

import pandas as pd
import seaborn as sns

dataset = pd.DataFrame(
    {
        'Lvl1': ['A', 'A', 'A', 'B', 'B', 'B'], 'Lvl2': [1, 2, 1, 2, 1, 2], 
        'value': [1, 2, 3, 4, 5, 6]
    }
)
ax = sns.boxplot(x='Lvl1', y='value', hue="Lvl2", data=dataset)

Expired output:

edited Nov 25, 2021 at 2:59

Tyler2P

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answered Nov 24, 2021 at 17:41

ShotaScientist

1

1 Comment

Michał Player Over a year ago

Thank you. Is there an extension for the case where there are more then 2 columns that we take into account? Like let's say 3 levels or more?

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