Data-Science-For-Beginners/3-Data-Visualization/12-visualization-relationships

Visualizing Relationships: All About Honey 🍯

Visualizing Relationships - Sketchnote by @nitya

Continuing with the nature focus of our research, let's discover interesting visualizations to show the relationships between various types of honey, according to a dataset derived from the United States Department of Agriculture.

This dataset of about 600 items displays honey production in many U.S. states. So, for example, you can look at the number of colonies, yield per colony, total production, stocks, price per pound, and value of the honey produced in a given state from 1998-2012, with one row per year for each state.

It will be interesting to visualize the relationship between a given state's production per year and, for example, the price of honey in that state. Alternately, you could visualize the relationship between states' honey yield per colony. This year span covers the devastating 'CCD' or 'Colony Collapse Disorder' first seen in 2006 (http://npic.orst.edu/envir/ccd.html), so it is a poignant dataset to study. 🐝

Pre-lecture quiz

In this lesson, you can use Seaborn, which you have used before, as a good library to visualize relationships between variables. Particularly interesting is the use of Seaborn's relplot function that allows scatter plots and line plots to quickly visualize 'statistical relationships', which allow the data scientist to better understand how variables relate to each other.

Scatterplots

Use a scatterplot to show how the price of honey has evolved, year over year, per state. Seaborn, using relplot, conveniently groups the state data and displays data points for both categorical and numeric data.

Let's start by importing the data and Seaborn:

import pandas as pd
import matplotlib.pyplot as plt
import seaborn as sns
honey = pd.read_csv('../../data/honey.csv')
honey.head()

You notice that the honey data has several interesting columns, including year and price per pound. Let's explore this data, grouped by U.S. state:

state	numcol	yieldpercol	totalprod	stocks	priceperlb	prodvalue	year
AL	16000	71	1136000	159000	0.72	818000	1998
AZ	55000	60	3300000	1485000	0.64	2112000	1998
AR	53000	65	3445000	1688000	0.59	2033000	1998
CA	450000	83	37350000	12326000	0.62	23157000	1998
CO	27000	72	1944000	1594000	0.7	1361000	1998

Create a basic scatterplot to show the relationship between the price per pound of honey and its U.S. state of origin. Make the y axis tall enough to display all the states:

sns.relplot(x="priceperlb", y="state", data=honey, height=15, aspect=.5);

Now, show the same data with a honey color scheme to show how the price evolves over the years. You can do this by adding a 'hue' parameter to show the change, year over year:

✅ Learn more about the color palettes you can use in Seaborn - try a beautiful rainbow color scheme!

sns.relplot(x="priceperlb", y="state", hue="year", palette="YlOrBr", data=honey, height=15, aspect=.5);

With this color scheme change, you can see that there's obviously a strong progression over the years in terms of honey price per pound. Indeed, if you look at a sample set in the data to verify (pick a given state, Arizona for example) you can see a pattern of price increases year over year, with few exceptions:

state	numcol	yieldpercol	totalprod	stocks	priceperlb	prodvalue	year
AZ	55000	60	3300000	1485000	0.64	2112000	1998
AZ	52000	62	3224000	1548000	0.62	1999000	1999
AZ	40000	59	2360000	1322000	0.73	1723000	2000
AZ	43000	59	2537000	1142000	0.72	1827000	2001
AZ	38000	63	2394000	1197000	1.08	2586000	2002
AZ	35000	72	2520000	983000	1.34	3377000	2003
AZ	32000	55	1760000	774000	1.11	1954000	2004
AZ	36000	50	1800000	720000	1.04	1872000	2005
AZ	30000	65	1950000	839000	0.91	1775000	2006
AZ	30000	64	1920000	902000	1.26	2419000	2007
AZ	25000	64	1600000	336000	1.26	2016000	2008
AZ	20000	52	1040000	562000	1.45	1508000	2009
AZ	24000	77	1848000	665000	1.52	2809000	2010
AZ	23000	53	1219000	427000	1.55	1889000	2011
AZ	22000	46	1012000	253000	1.79	1811000	2012

Another way to visualize this progression is to use size, rather than color. For colorblind users, this might be a better option. Edit your visualization to show an increase of price by an increase in dot circumference:

sns.relplot(x="priceperlb", y="state", size="year", data=honey, height=15, aspect=.5);

You can see the size of the dots gradually increasing.

Is this a simple case of supply and demand? Due to factors such as climate change and colony collapse, is there less honey available for purchase year over year, and thus the price increases?

To discover a correlation between some of the variables in this dataset, let's explore some line charts.

Line charts

Question: Is there a clear rise in price of honey per pound year over year? You can most easily discover that by creating a single line chart:

sns.relplot(x="year", y="priceperlb", kind="line", data=honey);

Answer: Yes, with some exceptions around the year 2003:

✅ Because Seaborn is aggregating data around one line, it displays "the multiple measurements at each x value by plotting the mean and the 95% confidence interval around the mean". Source. This time-consuming behavior can be disabled by adding ci=None.

Question: Well, in 2003 can we also see a spike in the honey supply? What if you look at total production year over year?

sns.relplot(x="year", y="totalprod", kind="line", data=honey);

Answer: Not really. If you look at total production, it actually seems to have increased in that particular year, even though generally speaking the amount of honey being produced is in decline during these years.

Question: In that case, what could have caused that spike in the price of honey around 2003?

To discover this, you can explore a facet grid.

Facet grids

Facet grids take one facet of your dataset (in our case, you can choose 'year' to avoid having too many facets produced). Seaborn can then make a plot for each of those facets of your chosen x and y coordinates for more easy visual comparison. Does 2003 stand out in this type of comparison?

Create a facet grid by continuing to use relplot as recommended by Seaborn's documentation.

sns.relplot(
    data=honey, 
    x="yieldpercol", y="numcol",
    col="year", 
    col_wrap=3,
    kind="line"

In this visualization, you can compare the yield per colony and number of colonies year over year, side by side with a wrap set at 3 for the columns:

For this dataset, nothing particularly stands out with regards to the number of colonies and their yield, year over year and state over state. Is there a different way to look at finding a correlation between these two variables?

Dual-line Plots

Try a multiline plot by superimposing two lineplots on top of each other, using Seaborn's 'despine' to remove their top and right spines, and using ax.twinx derived from Matplotlib. Twinx allows a chart to share the x axis and display two y axes. So, display the yield per colony and number of colonies, superimposed:

fig, ax = plt.subplots(figsize=(12,6))
lineplot = sns.lineplot(x=honey['year'], y=honey['numcol'], data=honey, 
                        label = 'Number of bee colonies', legend=False)
sns.despine()
plt.ylabel('# colonies')
plt.title('Honey Production Year over Year');

ax2 = ax.twinx()
lineplot2 = sns.lineplot(x=honey['year'], y=honey['yieldpercol'], ax=ax2, color="r", 
                         label ='Yield per colony', legend=False) 
sns.despine(right=False)
plt.ylabel('colony yield')
ax.figure.legend();

While nothing jumps out to the eye around the year 2003, it does allow us to end this lesson on a little happier note: while there are overall a declining number of colonies, the number of colonies is stabilizing even if their yield per colony is decreasing.

Go, bees, go!

🐝❤️

🚀 Challenge

In this lesson, you learned a bit more about other uses of scatterplots and line grids, including facet grids. Challenge yourself to create a facet grid using a different dataset, maybe one you used prior to these lessons. Note how long they take to create and how you need to be careful about how many grids you need to draw using these techniques.

Post-lecture quiz

Review & Self Study

Line plots can be simple or quite complex. Do a bit of reading in the Seaborn documentation on the various ways you can build them. Try to enhance the line charts you built in this lesson with other methods listed in the docs.

Assignment

Dive into the beehive