Functions Explained

Overview

Teaching: 45 min
Exercises: 15 min

Questions

How can I write a new function in R?

Objectives

Define a function that takes arguments.

Return a value from a function.

Test a function.

Set default values for function arguments.

Explain why we should divide programs into small, single-purpose functions.

If we only had one data set to analyze, it would probably be faster to load the file into a spreadsheet and use that to plot simple statistics. However, the gapminder data is updated periodically, and we may want to pull in that new information later and re-run our analysis again. We may also obtain similar data from a different source in the future.

In this lesson, we’ll learn how to write a function so that we can repeat several operations with a single command.

What is a function?

Functions gather a sequence of operations into a whole, preserving it for ongoing use. Functions provide:

a name we can remember and invoke it by

relief from the need to remember the individual operations

a defined set of inputs and expected outputs

rich connections to the larger programming environment

As the basic building block of most programming languages, user-defined functions constitute “programming” as much as any single abstraction can. If you have written a function, you are a computer programmer.

Defining a function

Let’s open a new R script file in the functions/ directory and call it functions-lesson.R.

my_sum <- function(a, b) {
  the_sum <- a + b
  return(the_sum)
}

Let’s define a function fahr_to_kelvin that converts temperatures from Fahrenheit to Kelvin:

fahr_to_kelvin <- function(temp) {
  kelvin <- ((temp - 32) * (5 / 9)) + 273.15
  return(kelvin)
}

We define fahr_to_kelvin by assigning it to the output of function. The list of argument names are contained within parentheses. Next, the body of the function–the statements that are executed when it runs–is contained within curly braces ({}). The statements in the body are indented by two spaces. This makes the code easier to read but does not affect how the code operates.

When we call the function, the values we pass to it as arguments are assigned to those variables so that we can use them inside the function. Inside the function, we use a return statement to send a result back to whoever asked for it.

Tip

One feature unique to R is that the return statement is not required. R automatically returns whichever variable is on the last line of the body of the function. But for clarity, we will explicitly define the return statement.

Let’s try running our function. Calling our own function is no different from calling any other function:

# freezing point of water
fahr_to_kelvin(32)

## [1] 273.15

# boiling point of water
fahr_to_kelvin(212)

## [1] 373.15

Challenge 1

Write a function called kelvin_to_celsius that takes a temperature in Kelvin and returns that temperature in Celsius

Hint: To convert from Kelvin to Celsius you minus 273.15
Solution to challenge 1

Write a function called kelvin_to_celsius that takes a temperature in Kelvin and returns that temperature in Celsius
kelvin_to_celsius <- function(temp) {
 celsius <- temp - 273.15
 return(celsius)
}

Combining functions

The real power of functions comes from mixing, matching and combining them into ever large chunks to get the effect we want.

Let’s define two functions that will convert temperature from Fahrenheit to Kelvin, and Kelvin to Celsius:

fahr_to_kelvin <- function(temp) {
  kelvin <- ((temp - 32) * (5 / 9)) + 273.15
  return(kelvin)
}

kelvin_to_celsius <- function(temp) {
  celsius <- temp - 273.15
  return(celsius)
}

Challenge 2

Define the function to convert directly from Fahrenheit to Celsius, by reusing the two functions above (or using your own functions if you prefer).
Solution to challenge 2

Define the function to convert directly from Fahrenheit to Celsius, by reusing these two functions above
fahr_to_celsius <- function(temp) {
  temp_k <- fahr_to_kelvin(temp)
  result <- kelvin_to_celsius(temp_k)
  return(result)
}

We’re going to define a function that calculates the Gross Domestic Product of a nation from the data available in our dataset:

# Takes a dataset and multiplies the population column
# with the GDP per capita column.
calcGDP <- function(dat) {
  gdp <- dat$pop * dat$gdpPercap
  return(gdp)
}

We define calcGDP by assigning it to the output of function. The list of argument names are contained within parentheses. Next, the body of the function – the statements executed when you call the function – is contained within curly braces ({}).

We’ve indented the statements in the body by two spaces. This makes the code easier to read but does not affect how it operates.

When we call the function, the values we pass to it are assigned to the arguments, which become variables inside the body of the function.

Inside the function, we use the return function to send back the result. This return function is optional: R will automatically return the results of whatever command is executed on the last line of the function.

calcGDP(head(gapminder))

## [1]  6567086330  7585448670  8758855797  9648014150  9678553274 11697659231

That’s not very informative. Let’s add some more arguments so we can extract that per year and country.

# Takes a dataset and multiplies the population column
# with the GDP per capita column.
calcGDP <- function(dat, year=NULL, country=NULL) {
  if(!is.null(year)) {
    dat <- dat[dat$year %in% year, ]
  }
  if (!is.null(country)) {
    dat <- dat[dat$country %in% country,]
  }
  gdp <- dat$pop * dat$gdpPercap

  new <- cbind(dat, gdp=gdp)
  return(new)
}

If you’ve been writing these functions down into a separate R script (a good idea!), you can load in the functions into our R session by using the source function:

source("functions/functions-lesson.R")

Ok, so there’s a lot going on in this function now. In plain English, the function now subsets the provided data by year if the year argument isn’t empty, then subsets the result by country if the country argument isn’t empty. Then it calculates the GDP for whatever subset emerges from the previous two steps. The function then adds the GDP as a new column to the subsetted data and returns this as the final result. You can see that the output is much more informative than a vector of numbers.

Let’s take a look at what happens when we specify the year:

head(calcGDP(gapminder, year=2007))

##        country continent year lifeExp      pop  gdpPercap          gdp
## 12 Afghanistan      Asia 2007  43.828 31889923   974.5803  31079291949
## 24     Albania    Europe 2007  76.423  3600523  5937.0295  21376411360
## 36     Algeria    Africa 2007  72.301 33333216  6223.3675 207444851958
## 48      Angola    Africa 2007  42.731 12420476  4797.2313  59583895818
## 60   Argentina  Americas 2007  75.320 40301927 12779.3796 515033625357
## 72   Australia   Oceania 2007  81.235 20434176 34435.3674 703658358894

Or for a specific country:

calcGDP(gapminder, country="Australia")

##      country continent year lifeExp      pop gdpPercap          gdp
## 61 Australia   Oceania 1952  69.120  8691212  10039.60  87256254102
## 62 Australia   Oceania 1957  70.330  9712569  10949.65 106349227169
## 63 Australia   Oceania 1962  70.930 10794968  12217.23 131884573002
## 64 Australia   Oceania 1967  71.100 11872264  14526.12 172457986742
## 65 Australia   Oceania 1972  71.930 13177000  16788.63 221223770658
## 66 Australia   Oceania 1977  73.490 14074100  18334.20 258037329175
## 67 Australia   Oceania 1982  74.740 15184200  19477.01 295742804309
## 68 Australia   Oceania 1987  76.320 16257249  21888.89 355853119294
## 69 Australia   Oceania 1992  77.560 17481977  23424.77 409511234952
## 70 Australia   Oceania 1997  78.830 18565243  26997.94 501223252921
## 71 Australia   Oceania 2002  80.370 19546792  30687.75 599847158654
## 72 Australia   Oceania 2007  81.235 20434176  34435.37 703658358894

Or both:

calcGDP(gapminder, year=2007, country="Australia")

##      country continent year lifeExp      pop gdpPercap          gdp
## 72 Australia   Oceania 2007  81.235 20434176  34435.37 703658358894

Let’s walk through the body of the function:

calcGDP <- function(dat, year=NULL, country=NULL) {

Here we’ve added two arguments, year, and country. We’ve set default arguments for both as NULL using the = operator in the function definition. This means that those arguments will take on those values unless the user specifies otherwise.

  if(!is.null(year)) {
    dat <- dat[dat$year %in% year, ]
  }
  if (!is.null(country)) {
    dat <- dat[dat$country %in% country,]
  }

Here, we check whether each additional argument is set to null, and whenever they’re not null overwrite the dataset stored in dat with a subset given by the non-null argument.

I did this so that our function is more flexible for later. We can ask it to calculate the GDP for:

The whole dataset;
A single year;
A single country;
A single combination of year and country.

By using %in% instead, we can also give multiple years or countries to those arguments.

Tip: Pass by value

Functions in R almost always make copies of the data to operate on inside of a function body. When we modify dat inside the function we are modifying the copy of the gapminder dataset stored in dat, not the original variable we gave as the first argument.

This is called “pass-by-value” and it makes writing code much safer: you can always be sure that whatever changes you make within the body of the function, stay inside the body of the function.

Tip: Function scope

Another important concept is scoping: any variables (or functions!) you create or modify inside the body of a function only exist for the lifetime of the function’s execution. When we call calcGDP, the variables dat, gdp and new only exist inside the body of the function. Even if we have variables of the same name in our interactive R session, they are not modified in any way when executing a function.

  gdp <- dat$pop * dat$gdpPercap
  new <- cbind(dat, gdp=gdp)
  return(new)
}

Finally, we calculated the GDP on our new subset, and created a new data frame with that column added. This means when we call the function later we can see the context for the returned GDP values, which is much better than in our first attempt where we got a vector of numbers.

Challenge 3

Test out your GDP function by calculating the GDP for New Zealand in 1987. How does this differ from New Zealand’s GDP in 1952?

Solution to challenge 3

GDP for New Zealand in 1987: 65050008703

GDP for New Zealand in 1952: 21058193787

Challenge 4

The paste function can be used to combine text together, e.g:
best_practice <- c("Write", "programs", "for", "people", "not", "computers")
paste(best_practice, collapse=" ")
## [1] "Write programs for people not computers"
Write a function called fence that takes two vectors as arguments, called text and wrapper, and prints out the text wrapped with the wrapper:
fence(text=best_practice, wrapper="***")
Note: the paste function has an argument called sep, which specifies the separator between text. The default is a space: “ “. The default for paste0 is no space “”.
Solution to challenge 4

Write a function called fence that takes two vectors as arguments, called text and wrapper, and prints out the text wrapped with the wrapper:
fence <- function(text, wrapper){
  text <- c(wrapper, text, wrapper)
  result <- paste(text, collapse = " ")
  return(result)
}
best_practice <- c("Write", "programs", "for", "people", "not", "computers")
fence(text=best_practice, wrapper="***")
## [1] "*** Write programs for people not computers ***"

Tip

R has some unique aspects that can be exploited when performing more complicated operations. We will not be writing anything that requires knowledge of these more advanced concepts. In the future when you are comfortable writing functions in R, you can learn more by reading the R Language Manual or this chapter from Advanced R Programming by Hadley Wickham. For context, R uses the terminology “environments” instead of frames.

Tip: Testing and documenting

It’s important to both test functions and document them: Documentation helps you, and others, understand what the purpose of your function is, and how to use it, and its important to make sure that your function actually does what you think.

When you first start out, your workflow will probably look a lot like this:

Write a function

Comment parts of the function to document its behaviour

Load in the source file

Experiment with it in the console to make sure it behaves as you expect

Make any necessary bug fixes

Rinse and repeat.

Formal documentation for functions, written in separate .Rd files, gets turned into the documentation you see in help files. The roxygen2 package allows R coders to write documentation alongside the function code and then process it into the appropriate .Rd files. You will want to switch to this more formal method of writing documentation when you start writing more complicated R projects.

Formal automated tests can be written using the testthat package.

Key Points

Use function to define a new function in R.

Use parameters to pass values into functions.

Load functions into programs using source.

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R for Reproducible Research

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Functions Explained

Overview

What is a function?

Defining a function

Tip

Challenge 1

Solution to challenge 1

Combining functions

Challenge 2

Solution to challenge 2

Tip: Pass by value

Tip: Function scope

Challenge 3

Solution to challenge 3

Challenge 4

Solution to challenge 4

Tip

Tip: Testing and documenting

Key Points

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