Hands-on Exercise 9a

1 Overview

Ternary plots are a way of displaying the distribution and variability of three-part compositional data. (For example, the proportion of aged, economy active and young population or sand, silt, and clay in soil.) It’s display is a triangle with sides scaled from 0 to 1. Each side represents one of the three components. A point is plotted so that a line drawn perpendicular from the point to each leg of the triangle intersect at the component values of the point.

In this hands-on, one will learn how to build ternary plot programmatically using R for visualising and analysing population structure of Singapore.

The hands-on exercise consists of four steps:

• Install and launch tidyverse and ggtern packages.

• Derive three new measures using mutate() function of dplyr package.

• Build a static ternary plot using ggtern() function of ggtern package.

• Build an interactive ternary plot using plot-ly() function of Plotly R package.

2 Installing and launching R packages

For this exercise, two main R packages will be used in this hands-on exercise, they are:

• ggtern, a ggplot extension specially designed to plot ternary diagrams. The package will be used to plot static ternary plots.

• Plotly R, an R package for creating interactive web-based graphs via plotly’s JavaScript graphing library, plotly.js . The plotly R libary contains the ggplotly function, which will convert ggplot2 figures into a Plotly object.

We will also need to ensure that selected tidyverse family packages namely: readr, dplyr and tidyr are also installed and loaded.

The code chunks below will accomplish the task.

pacman::p_load(plotly, ggtern, tidyverse)

package 'DEoptimR' successfully unpacked and MD5 sums checked
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package 'robustbase' successfully unpacked and MD5 sums checked
package 'bayesm' successfully unpacked and MD5 sums checked
package 'compositions' successfully unpacked and MD5 sums checked
package 'latex2exp' successfully unpacked and MD5 sums checked
package 'proto' successfully unpacked and MD5 sums checked
package 'hexbin' successfully unpacked and MD5 sums checked
package 'ggtern' successfully unpacked and MD5 sums checked

The downloaded binary packages are in
    C:\Users\yifan\AppData\Local\Temp\RtmpEHRzhp\downloaded_packages

3 Data Preparation

3.1 The data

For the purpose of this hands-on exercise, the Singapore Residents by Planning AreaSubzone, Age Group, Sex and Type of Dwelling, June 2000-2018 data will be used.

3.2 Importing the data

To important respopagsex2000to2018_tidy.csv into R, read_csv() function of readr package will be used.

pop_data <- read_csv("data/respopagsex2000to2018_tidy.csv") 

3.3 Preparing the Data

Next, use the mutate() function of dplyr package to derive three new measures, namely: young, active, and old.

#Deriving the young, economy active and old measures
agpop_mutated <- pop_data %>%
  mutate(`Year` = as.character(Year))%>%
  spread(AG, Population) %>%
  mutate(YOUNG = rowSums(.[4:8]))%>%
  mutate(ACTIVE = rowSums(.[9:16]))  %>%
  mutate(OLD = rowSums(.[17:21])) %>%
  mutate(TOTAL = rowSums(.[22:24])) %>%
  filter(Year == 2018)%>%
  filter(TOTAL > 0)

4 Plotting Ternary Diagram with R

4.1 Plotting a static ternary diagram

Use ggtern() function of ggtern package to create a simple ternary plot.

#Building the static ternary plot
ggtern(data=agpop_mutated,aes(x=YOUNG,y=ACTIVE, z=OLD)) +
  geom_point()

#Building the static ternary plot
ggtern(data=agpop_mutated, aes(x=YOUNG,y=ACTIVE, z=OLD)) +
  geom_point() +
  labs(title="Population structure, 2015") +
  theme_rgbw()

4.2 Plotting an interactive ternary diagram

The code below create an interactive ternary plot using plot_ly() function of Plotly R.

# reusable function for creating annotation object
label <- function(txt) {
  list(
    text = txt, 
    x = 0.1, y = 1,
    ax = 0, ay = 0,
    xref = "paper", yref = "paper", 
    align = "center",
    font = list(family = "serif", size = 15, color = "white"),
    bgcolor = "#b3b3b3", bordercolor = "black", borderwidth = 2
  )
}

# reusable function for axis formatting
axis <- function(txt) {
  list(
    title = txt, tickformat = ".0%", tickfont = list(size = 10)
  )
}

ternaryAxes <- list(
  aaxis = axis("Young"), 
  baxis = axis("Active"), 
  caxis = axis("Old")
)

# Initiating a plotly visualization 
plot_ly(
  agpop_mutated, 
  a = ~YOUNG, 
  b = ~ACTIVE, 
  c = ~OLD, 
  color = I("black"), 
  type = "scatterternary"
) %>%
  layout(
    annotations = label("Ternary Markers"), 
    ternary = ternaryAxes
  )