Merge branch 'master' of github.com:EricMarcon/WorkingWithR

01-Software.Rmd

@@ -153,9 +153,9 @@ The backup of this folder is managed elsewhere.
 * A folder outside the home folder is used for source-controlled projects. 
 The user must have the right to write to it.
 In the Windows organization, the folder corresponding to these criteria is `%LOCALAPPDATA%`, typically `C:\Users\Name\AppData`.
-The folder will therefore be `%LOCALAPPDATA%\ProjectsR`.
-To create it, run `md %LOCALAPPDATA%\ProjectsR` in a command prompt.
-Pin this folder to the quick access of the file explorer (figure \@ref(fig:R-ProjetsR)): paste `%LOCALAPPDATA%\ProjetsR` in the address bar of the file explorer, validate, then right click on "Quick Access" and pin the folder.
+The folder will therefore be `%LOCALAPPDATA%\RProjects`.
+To create it, run `md %LOCALAPPDATA%\RProjects` in a command prompt.
+Pin this folder to the quick access of the file explorer (figure \@ref(fig:R-ProjetsR)): paste `%LOCALAPPDATA%\RProjects` in the address bar of the file explorer, validate, then right click on "Quick Access" and pin the folder.
 
 (ref:R-ProjetsR) Folder for projects under source control, on Windows.
 ```{r R-ProjetsR, fig.cap="(ref:R-ProjetsR)", echo=FALSE, out.width='100%'}

04-Writing.Rmd

@@ -248,19 +248,19 @@ The horizontal `-` and vertical `|` separators allow to draw a table according t
 
 Tables can also be produced by R code.
 The content of the table is in a dataframe.
-The `kable` function in the _knitr_ package prepares the table for display and passes the result to the `kable_styling` function in the _kableExtra_ package for final formatting.
+The `kbl` function in the _kableExtra_ package prepares the table for display and passes the result to the `kable_styling` function for final formatting.
 
 ```{r kable, echo=TRUE, warning=FALSE}
 library("tidyverse")
 my_iris <- head(iris)
 names(my_iris) <- c("Sepal length ($l_s$)", "Width", "Petal length", "Width", "Species")
-knitr::kable(my_iris, caption="Table created by kable", booktabs = TRUE, escape = FALSE) %>%
+kableExtra::kbl(my_iris, caption="Table created by kable", booktabs = TRUE, escape = FALSE) %>%
   kableExtra::kable_styling(bootstrap_options = "striped", full_width = FALSE)
 ```
 
 The caption is specified by the `caption` argument and referencing is possible because the table is given a label whose name is `tab:` followed by the name of the code snippet (table \@ref(tab:kable)).
 As with the figures, an enhanced caption can be written in a separate paragraph.
-A short caption for a possible list of tables (option `lot: true` in the header) is declared in the `caption.short` argument of `kable()`.
+A short caption for a possible list of tables (option `lot: true` in the header) is declared in the `caption.short` argument of `kbl()`.
 
 Always use the `booktabs = TRUE` argument so that the thickness of the separator lines is optimal in LaTeX.
 Since the table contains mathematics (in the name of the first column), the `escape = FALSE` option is necessary.
@@ -1443,6 +1443,11 @@ If necessary, images can be produced in BMP (bitmap, without compression), JPEG
 
 ### Functions
 
+ggplots can be saved to a file by the `ggsave()` function.
+The extension of the file name sets its format.
+See the help of the function for more details.
+
+Other graphics require another method.
 The `postscript()` function produces an EPS file.
 The R code must call the function to create the file, produce the figure, and then close the file, for example:
 

index.Rmd

@@ -110,14 +110,6 @@ InstallPackages <- function(Packages) {
 # Basic packages
 InstallPackages(c("bookdown", "formatR", "kableExtra", "magick", "ragg"))
 
-# kableExtra must be loaded 
-if (knitr::opts_knit$get("rmarkdown.pandoc.to") == "docx") {
-  # Word output (https://stackoverflow.com/questions/35144130/in-knitr-how-can-i-test-for-if-the-output-will-be-pdf-or-word)
-  # Do not use autoformat (https://github.com/haozhu233/kableExtra/issues/308)
-  options(kableExtra.auto_format = FALSE)
-}
-library("kableExtra")
-
 # Chunk font size hook: allows size='small' or any valid Latex font size in chunk options
 def.chunk.hook  <- knitr::knit_hooks$get("chunk")
 knitr::knit_hooks$set(chunk = function(x, options) {