Displaying Special Symbols for Equations and Reactions

This is an example to show special characters and formats in ggplot2.

In the following example, we are going to show a chemical reaction in a plot created by “ggplot2”. It may seem straightforward but the way R handling it is not. Let’s see the codes.

library(ggplot2)  # for plotting

# setting up the base plot
g = ggplot()
g = g + geom_text(aes(x = 1, y = 1, label = 'S(IV)["(aq)"]~"+"~H[2]*O[2*"(aq)"] %->% SO[4*"(aq)"]^"2–"~(mode~1)'), parse = T)

g

In the code example, we try to pass a string defined for “label” into the “R” basic function “parse” to convert plain text into an “plot.math” object, i.e., a chemical equation in this example. There are some strange symbols in the string and they all carry special function -

  • round brackets “(” and “)” are quoted so that “parse” considers them normal characters.
  • “~” and “*” indicate whether linking characters are separated by a space or not, respectively.
  • “~” can sometimes be replaced by a space character " " if there is no ambiguity for “parse”.
  • “[” and “]” are used to put the containing characters a subscript.
  • “^” is used for super-scripting, and, to put multiple characters into one superscription, we need to quote the characters using quotation marks “"”.
  • For an expression with both sub- and superscription, “parse” considers them orderly as sub- > superscription.
  • Finally, “%->%” is the arrow symbol, and a list of such special equation symbols can be found in this website of plotmath.
Ka Ming FUNG
Ka Ming FUNG
Postdoctoral Associate

Earth System Scientist studying food security, air pollution, and environmental health under climate change

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