This will build on much of what you've learned in @sec-data-import, but we will also discuss additional considerations and complexities when working with data from spreadsheets.
If you or your collaborators are using spreadsheets for organizing data, we strongly recommend reading the paper "Data Organization in Spreadsheets" by Karl Broman and Kara Woo: <https://doi.org/10.1080/00031305.2017.1375989>.
Most of readxl's functions allow you to load Excel spreadsheets into R:
- `read_xls()` reads Excel files with `xls` format.
- `read_xlsx()` read Excel files with `xlsx` format.
- `read_excel()` can read files with both `xls` and `xlsx` format. It guesses the file type based on the input.
These functions all have similar syntax just like other functions we have previously introduced for reading other types of files, e.g. `read_csv()`, `read_table()`, etc.
For the rest of the chapter we will focus on using `read_excel()`.
2. In the `favourite_food` column, one of the observations is `N/A`, which stands for "not available" but it's currently not recognized as an `NA` (note the contrast between this `N/A` and the age of the fourth student in the list).
You can specify which character strings should be recognized as `NA`s with the `na` argument.
By default, only `""` (empty string, or, in the case of reading from a spreadsheet, an empty cell or a cell with the formula `=NA()`) is recognized as an `NA`.
3. One other remaining issue is that `age` is read in as a character variable, but it really should be numeric.
Just like with `read_csv()` and friends for reading data from flat files, you can supply a `col_types` argument to `read_excel()` and specify the column types for the variables you read in.
The syntax is a bit different, though.
Your options are `"skip"`, `"guess"`, `"logical"`, `"numeric"`, `"date"`, `"text"` or `"list"`.
Data science is an iterative process, and the process of iteration can be even more tedious when reading data in from spreadsheets compared to other plain text, rectangular data files because humans tend to input data into spreadsheets and use them not just for data storage but also for sharing and communication.
If you're going to do so, we recommend making a copy of the Excel file to open and browse interactively while leaving the original data file untouched and reading into R from the untouched file.
This will ensure you don't accidentally overwrite anything in the spreadsheet while inspecting it.
You should also not be afraid of doing what we did here: load the data, take a peek, make adjustments to your code, load it again, and repeat until you're happy with the result.
Alternatively, you can use `excel_sheets()` to get information on all worksheets in an Excel spreadsheet, and then read the one(s) you're interested in.
Since many use Excel spreadsheets for presentation as well as for data storage, it's quite common to find cell entries in a spreadsheet that are not part of the data you want to read into R.
@fig-deaths-excel shows such a spreadsheet: in the middle of the sheet is what looks like a data frame but there is extraneous text in cells above and below the data.
```{r}
#| label: fig-deaths-excel
#| echo: false
#| fig-cap: >
#| Spreadsheet called deaths.xlsx in Excel.
#| fig-alt: >
#| A look at the deaths spreadsheet in Excel. The spreadsheet has four rows
#| on top that contain non-data information; the text 'For the same of
#| consistency in the data layout, which is really a beautiful thing, I will
#| keep making notes up here.' is spread across cells in these top four rows.
#| Then, there is a data frame that includes information on deaths of 10
#| famous people, including their names, professions, ages, whether they have
#| kids or not, date of birth and death. At the bottom, there are four more
#| rows of non-data information; the text 'This has been really fun, but
#| we're signing off now!' is spread across cells in these bottom four rows.
A recommended workflow is to let readxl guess the column types, confirm that you're happy with the guessed column types, and if not, go back and re-import specifying `col_types` as shown in @sec-reading-spreadsheets.
Another challenge is when you have a column in your Excel spreadsheet that has a mix of these types, e.g. some cells are numeric, others text, others dates.
When importing the data into R readxl has to make some decisions.
In these cases you can set the type for this column to `"list"`, which will load the column as a list of length 1 vectors, where the type of each element of the vector is guessed.
The writexl package is a light-weight solution for writing a simple Excel spreadsheet, but if you're interested in additional features like writing to sheets within a spreadsheet and styling, you will want to use the [openxlsx package](https://ycphs.github.io/openxlsx).
We won't go into the details of using this package here, but we recommend reading <https://ycphs.github.io/openxlsx/articles/Formatting.html> for an extensive discussion on further formatting functionality for data written from R to Excel with openxlsx.
Note that this package is not part of the tidyverse so the functions and workflows may feel unfamiliar.
For example, function names are camelCase, multiple functions can't be composed in pipelines, and arguments are in a different order than they tend to be in the tidyverse.
As your R learning and usage expands outside of this book you will encounter lots of different styles used in various R packages that you might use to accomplish specific goals in R.
A good way of familiarizing yourself with the coding style used in a new package is to run the examples provided in function documentation to get a feel for the syntax and the output formats as well as reading any vignettes that might come with the package.
A quick note about the name of the package: googlesheets4 uses v4 of the [Sheets API v4](https://developers.google.com/sheets/api/) to provide an R interface to Google Sheets, hence the name.
In this section we'll work with the same datasets as the ones in the Excel section to highlight similarities and differences between workflows for reading data from Excel and Google Sheets.
readxl and googlesheets4 packages are both designed to mimic the functionality of the readr package, which provides the `read_csv()` function you've seen in @sec-data-import.
Therefore, many of the tasks can be accomplished with simply swapping out `read_excel()` for `read_sheet()`.
However you'll also see that Excel and Google Sheets don't behave in exactly the same way, therefore other tasks may require further updates to the function calls.
If you'd like to write your data to a specific (work)sheet inside a Google Sheet, you can specify that with the `sheet` argument as well.
```{r}
#| eval: false
write_sheet(bake_sale, ss = "bake-sale", sheet = "Sales")
```
### Authentication
While you can read from a public Google Sheet without authenticating with your Google account, reading a private sheet or writing to a sheet requires authentication so that googlesheets4 can view and manage *your* Google Sheets.
When you attempt to read in a sheet that requires authentication, googlesheets4 will direct you to a web browser with a prompt to sign in to your Google account and grant permission to operate on your behalf with Google Sheets.
However, if you want to specify a specific Google account, authentication scope, etc. you can do so with `gs4_auth()`, e.g. `gs4_auth(email = "mine@example.com")`, which will force the use of a token associated with a specific email.
For further authentication details, we recommend reading the documentation googlesheets4 auth vignette: <https://googlesheets4.tidyverse.org/articles/auth.html>.
1. Read the `students` dataset from earlier in the chapter from Excel and also from Google Sheets, with no additional arguments supplied to the `read_excel()` and `read_sheet()` functions.
Are the resulting data frames in R exactly the same?
2. Read the Google Sheet titled survey from <https://pos.it/r4ds-survey>, with `survey_id` as a character variable and `n_pets` as a numerical variable.
In this chapter you learned how to read data into R from spreadsheets: from Microsoft Excel with `read_excel()` from the readxl package and from Google Sheets with `read_sheet()` from the googlesheets4 package.
These functions work very similarly to each other and have similar arguments for specifying column names, NA strings, rows to skip on top of the file you're reading in, etc.
Additionally, both functions make it possible to read a single sheet from a spreadsheet as well.
On the other hand, writing to an Excel file requires a different package and function (`writexl::write_xlsx()`) while you can write to a Google Sheet with the googlesheets4 package, with `write_sheet()`.
In the next chapter, you'll learn about a different data source and how to read data from that source into R: databases.