Output data frames as tables using
kable(data, caption).
```{r}
data <- faithful[1:4, ]
knitr::kable(data,
caption = "Table with kable")
```
Other table packages include flextable, gt, and kableExtra.
Set options for the entire document in the first chunk.
```{r include=FALSE}
knitr::opts_chunk$set(message = FALSE)
```
Surround code chunks with ```{r} and ``` or use
the Insert Code Chunk button. Add a chunk label
and/or chunk options inside the curly braces after r.
```{r chunk-label, include=FALSE}
summary(mtcars)
```
rmarkdown : : CHEAT SHEET
Create citations from a bibliography file, a Zotero library,
or from DOI references.
BUILD YOUR BIBLIOGRAPHY
• Add BibTeX or CSL bibliographies to the YAML header.
---
title: "My Document"
bibliography: references.bib
link-citations: TRUE
---
• If Zotero is installed locally, your main library will
automatically be available.
• Add citations by DOI by searching "from DOI" in the
Insert Citation dialog.
INSERT CITATIONS
• Access the Insert Citations dialog in the Visual Editor
by clicking the @ symbol in the toolbar or by clicking
Insert > Citation.
• Add citations with markdown syntax by typing [@cite]
or @cite.
RStudio® is a trademark of RStudio, PBC • CC BY SA RStudio • info@rstudio.com • 844-448-1212 • rstudio.com • Learn more at rmarkdown.rstudio.com • rmarkdown 2.9.4 • Updated: 2021-08
publish to
rpubs.com,
shinyapps.io,
RStudio Connect
reload document
find in document
file path to output document
What is rmarkdown?
Workflow
Rmd
Write with
Markdown
modify
chunk
options
run all
previous
chunks run
current
chunk
insert
code
chunk
go to
code
chunk
run code
chunk(s)
show
outline
set
preview
location
4. Set Output Format(s)
and Options
3. Write Text
2. Embed Code
Insert `r <code>` into text sections. Code is evaluated
at render and results appear as text.
"Built with `r getRversion()`" --> "Built with 4.1.0"
Embed Code with knitr
INLINE CODE
SET GLOBAL OPTIONS
CODE CHUNKS
.Rmd files · Develop your code and
ideas side-by-side in a single
document. Run code as individual
chunks or as an entire document.
Dynamic Documents · Knit together
plots, tables, and results with
narrative text. Render to a variety of
formats like HTML, PDF, MS Word, or
MS Powerpoint.
Reproducible Research · Upload, link
to, or attach your report to share.
Anyone can read or run your code to
reproduce your work.
insert citations
add/edit
attributes
VISUAL EDITOR Insert Citations
Insert Tables
The syntax on the left renders as the output on the right.
OPTION
DEFAULT
EFFECTS
echo
TRUE
display code in output document
error
FALSE
TRUE (display error messages in doc)
FALSE (stop render when error occurs)
eval
TRUE
run code in chunk
include
TRUE
include chunk in doc after running
message
TRUE
display code messages in document
warning
TRUE
display code warnings in document
results
"markup"
"asis" (passthrough results)
"hide" (don't display results)
"hold" (put all results below all code)
fig.align
"default"
"left", "right", or "center"
fig.alt
NULL
alt text for a figure
fig.cap
NULL
figure caption as a character string
fig.path
"figure/"
prefix for generating figure file paths
fig.width &
fig.height
7
plot dimensions in inches
out.width
rescales output width, e.g. "75%", "300px"
collapse
FALSE
collapse all sources & output into a single block
comment
"##"
prefix for each line of results
child
NULL
files(s) to knit and then include
purl
TRUE
include or exclude a code chunk when
extracting source code with knitr::purl()
See more options and defaults by running str(knitr::opts_chunk$get())
6. Share
Plain text.
End a line with two spaces to
start a new paragraph.
Also end with a backslash\
to make a new line.
*italics* and **bold**
superscript^2^/subscript~2~
~~strikethrough~~
escaped: \* \_ \\
endash: --, emdash: ---
# Header 1
## Header 2
...
###### Header 6
- unordered list
- item 2
- item 2a (indent 1 tab)
- item 2b
1. ordered list
2. item 2
- item 2a (indent 1 tab)
- item 2b
<link url>
[This is a link.](link url)
[This is another link][id].
At the end of the document:
[id]: link url
or ![Caption][id2]
At the end of the document:
[id2]: image.png
`verbatim code`
```
multiple lines
of verbatim code
```
> block quotes
equation: $e^{i \pi} + 1 = 0$
equation block:
$$E = mc^{2}$$
horizontal rule:
---
| Right | Left | Default | Center |
|-------:|:------|-----------|:---------:|
| 12 | 12 | 12 | 12 |
| 123 | 123 | 123 | 123 |
| 1 | 1 | 1 | 1 |
HTML Tabsets
# Results {.tabset}
## Plots text
text
## Tables
more text
1. New File
1. Open a new .Rmd file in the RStudio IDE by
going to File > New File > R Markdown.
2. Embed code in chunks. Run code by line, by
chunk, or all at once.
3. Write text and add tables, figures, images, and
citations. Format with Markdown syntax or the
RStudio Visual Markdown Editor.
4. Set output format(s) and options in the YAML
header. Customize themes or add parameters
to execute or add interactivity with Shiny.
5. Save and render the whole document. Knit
periodically to preview your work as you write.
6. Share your work!
5. Save and Render
SOURCE EDITOR RENDERED OUTPUT
style options
1
2
3
4
5
6
Plain text.
End a line with two spaces to
start a new paragraph.
Also end with a backslash
to make a new line.
italics and bold
superscript2/subscript2
strikethrough
escaped: * _ \
endash: –, emdash: —
Header 1
Header 2
...
Header 6
• unordered list
• item 2
• item 2a (indent 1 tab)
• item 2b
1. ordered list
2. item 2
• item 2a (indent 1 tab)
• item 2b
http://www.rstudio.com/
This is a link.
This is another link.
Caption.
verbatim code
multiple lines
of verbatim code
block quotes
equation:
equation block:
horizontal rule:
Results
Plots Tables
text
eiπ+ 1 = 0
E=m c2
Right
Left
Default
Center
12
12
12
12
123
123
123
123
1
1
1
1
