I am using pander in my Rmarkdown document to display tables. Is there away to center the table?
I have tried a few different methods, but none of them seem to work. For example:
{r, fig.align="center"}
library(pander)
test <- as.data.frame(matrix(ncol = 5, nrow =5))
test[1] <- 1
pander(test, justify = "center")
Adding fig.align = "center" does not work and neither does justify = "center"
Does anyone know of a workaround ?
You could just add regular HTML tags to center the table (like <center>):
---
title: "test"
output:
html_document: default
pdf_document: default
---
<center>
```{r, fig.align="center"}
library(pander)
test <- as.data.frame(matrix(ncol = 5, nrow =5))
test[1] <- 1
pander(test, justify = "center")
```
</center>
If you want to show both the code and the centered table, but don't want the code centered, repeat the block, but don't evaluate it the first time, and then don't echo it the second time.
Here's an example:
Alternatively, add a custom CSS file with your styling options and add that to your header.
Example CSS (saved as "test.css"):
table {
margin:1em auto;
}
Example header:
---
title: "test"
output:
html_document:
css: test.css
---
Related
I need to be able to highlight all text in an r-markdown document that has been inserted using an inline code chunk. E.G r TEXT.
This is to enable editing of the automated Word document creation.
I have tried using
.highlight {
background-color: lightpink;
border: 3px solid red;
font-weight: bold;
}
r sprintf("<span class='highlight'>%s</span>",PNAME)
AND
r text_spec(TEXT, color = "red")
However, I suspect these are not working due to the reference .docx that I am using over-riding the styles.
Is there a way to still use the reference doc and have the highlighting??
Thanks in advance.
Silas
Using officedown::rdocx_document: default as the output type, we can use ftext and fp_text function from {officer} package to highlight text that were inserted using inline r code chunk.
---
title: "Inline code styling"
output:
officedown::rdocx_document: default
---
```{r setup, include=FALSE}
knitr::opts_chunk$set(echo = TRUE)
library(officer)
ft <- officer::fp_text(shading.color = "yellow")
word_spec <- function(x, prop = ft) ftext(text = toString(x) ,prop = ft)
```
## Inline code highlighting for word document
We can highlight text in an r-markdown document that has been inserted using an inline code for output type word document too.
- `r word_spec("text in inline code is highlighted")`
- The sum of 2 + 2 is `r word_spec(2 + 2)`
- The sequence from 1 to 10 is `r word_spec(1:10)`
And the rendered word document looks like this,
I'm unsuccessfully trying to set the font color for flextable generated in r markdown using a css stylesheet.
I can accomplish this when I turn off shadow host, but not with it on. (Just turning it off removes other desirable features.) Here's a short r markdown file demonstrating the difference.
---
title: "Untitled"
output: html_document
---
<style>
div.flextable-shadow-host * {
color: pink;
}
div.tabwid * {
color: pink;
}
</style>
# ignores CSS above
```{r, echo=FALSE}
library(flextable)
flextable(head(mtcars))
```
# accepts CSS above
```{r, echo=FALSE}
ft <- flextable(head(mtcars))
htmltools_value(ft, ft.shadow = FALSE)
```
I want the css external to the r code because I have a button selector on the website the user can change the overall style (e.g., dark mode or not).
When using shadow, the table is assembled outside of HTML. Only the id connects the table to HTML. However, flextable has functions for setting the color. Why not just use one of the many built-in methods to change the color?
For example:
# ignores CSS above
```{r liberator,include=F}
library(flextable)
library(tidyverse)
```
```{r tbler, echo=FALSE}
flextable(head(mtcars)) %>%
color(color = "pink", part = "all")
```
# accepts CSS above
```{r, echo=FALSE}
ft <- flextable(head(mtcars))
htmltools_value(ft, ft.shadow = FALSE)
```
There are many things you can do with flextable styling. You can see more customization options here.
Update: Based on your comments
Okay, this works to change the color of a flextable.
This works if there is only one flextable in the script.
I have the color of the text set to #b21E29 (a shade of red). You can change that as you see fit.
These will SKIP non-shadow flextables
Add this chunk anywhere in your RMD script. This requires no additional libraries or any other customization in your R code.
```{r js_ing,results="asis",engine="js",echo=F}
// extract the styles that are set for the flextable
letMe = document.querySelector('div.flextable-shadow-host').shadowRoot.querySelector('div>style');
// replace color style
// preceding ';' so that 'background-color' doesn't change
letMe.innerHTML = letMe.innerHTML.replace(/;(color:.+?);/g, ';color:#b21e29 !important;');
```
If you have more than one flextable with shadow on, you can use one of the two following chunks instead. In the first--all the same color; in the second--each table has a different color.
These work if there is more than one flextable in the script.
Pay attention to the comments so you can see what to use when depending on your desired output.
All the same color:
```{r moreJs_ing,results="asis",engine="js",echo=F}
// collect all of the flextables with shadow
letMe = document.querySelectorAll('div.flextable-shadow-host');
// to set all shadow flextables to the same font color:
for(i = 0, n = letMe.length; i < n; i++){
showMe = letMe[i].shadowRoot.querySelector('div>style');
showMe.innerHTML = showMe.innerHTML.replace(/;(color:.+?);/g, ';color:#b21e29 !important;');
}
```
Each with there own color:
```{r evenMoreJs_ing,results="asis",engine="js",echo=F}
//alternatively to set each to a different color
// make sure you only include one of these options!
// collect all of the flextables with shadow
letMe = document.querySelectorAll('div.flextable-shadow-host');
// first table in script
showFirst = letMe[0].shadowRoot.querySelector('div>style');
showFirst.innerHTML = showFirst.innerHTML.replace(/;(color:.+?);/g, ';color:#b21e29 !important;');
// second table in script
showSecond = letMe[1].shadowRoot.querySelector('div>style');
showSecond.innerHTML = showSecond.innerHTML.replace(/;(color:.+?);/g, ';color:#003b70 !important;');
// change the indices for each table, keep in mind the first table is [0], not [1]
```
If you aren't sure where you want to go with these, add all three and and include=F as a chunk option to the two you aren't using at that moment in time.
I'm trying to make a 'compact' table in an RMarkdown
I've tried a few things, mostly variations on setting a custom css class and providing the custom css class to a code chunk
I've tried a lot of variations, all of which I can see flow through to the source code (accessed via knitting the html document, opening in chrome, and cmd + opt + u to view source and inspecting the source)
However, I can't work out what's necessary to simply make rows thinner (I believe that's simply reducing cell padding) in a kableExtra table
What I've tried so far
Here's one variation of what I've tried, but the rows are not compact as hoped (they are the standard height)
Which is done with:
---
output: html_document
---
```{r setup, include=FALSE}
library(dplyr); library(kableExtra)
knitr::opts_chunk$set(echo = TRUE, message = FALSE, warning = FALSE)
library(dplyr)
library(kableExtra)
```
<style>
pre code, pre, code {
padding: 200 !important;
}
</style>
```{r}
iris %>%
kable %>%
kable_styling("striped", full_width = F) %>%
column_spec(4:5, bold = T) %>%
row_spec(3:5, bold = T, color = "white", background = "#D7261E")
```
but note that the custom css is not taking effect
The easiest way is to override the Bootstrap CSS, decreasing value of padding property (default value is 8px):
<style>
.table>tbody>tr>td{
padding: 1px;
}
</style>
As you pointed out, inspecting the source will lead you to the values above:
You could also do something similar within row_spec(1:nrow(iris), extra_css = "..")
To make the kable rows smaller in a knit to HTML, you can use bootstrap_options = c("condensed") in your kable_styling:
kable_styling(bootstrap_options = c("condensed"))
See https://cran.r-project.org/web/packages/kableExtra/vignettes/awesome_table_in_html.html
If anyone knows the pdf variant for it, please let me know :)
I'm using the tufte R package to create an html document with margin notes. Some of my margin notes are figures that are fairly tall. For example:
---
title: Big sidenote
output:
tufte::tufte_html: default
---
```{r setup, include=FALSE}
library(tufte)
# invalidate cache when the tufte version changes
knitr::opts_chunk$set(tidy = FALSE, cache.extra = packageVersion('tufte'))
options(htmltools.dir.version = FALSE)
```
```{r fig.margin = TRUE, fig.cap="Fig1. My margin figure is kind of tall.", echo=FALSE}
plot(mtcars)
```
Here is paragraph 1. It's pretty short and it's associated with Fig 1.
```{r fig.margin = TRUE, fig.cap="Fig 2. Related to the second paragraph.", echo=FALSE}
plot(subset(mtcars, cyl==6))
```
I'd like this paragraph to start in line with Fig 2.
```
I would like the paragraph in the main body to begin below the bottom of the figure in the margin.
Is this possible within the markdown? My CSS skills/understanding are limited.
I figured this out. Simple for those who know CSS well, but here for those who don't. The margin notes are created with a float property. You can use the float property to disallow floating elements to the side of your text.
I created a new "cleared" class that clears elements to the right:
<style>
.cleared {clear: right;}
</style>
Then, whenever I wanted text to skip down to the next figure, I created a div of the cleared class:
<div class = "cleared"></div>
Here is the full example:
---
title: Big sidenote
output:
tufte::tufte_html: default
---
<style>
.cleared {clear: right;}
</style>
```{r setup, include=FALSE}
library(tufte)
# invalidate cache when the tufte version changes
knitr::opts_chunk$set(tidy = FALSE, cache.extra = packageVersion('tufte'))
options(htmltools.dir.version = FALSE)
```
```{r fig.margin = TRUE, fig.cap="Fig1. My margin figure is kind of tall.", echo=FALSE}
plot(mtcars)
```
Here is paragraph 1. It's pretty short and it's associated with Fig 1.
<div class = "cleared"></div>
```{r fig.margin = TRUE, fig.cap="Fig 2. Related to the second paragraph.", echo=FALSE}
plot(subset(mtcars, cyl==6))
```
I'd like this paragraph to start in line with Fig 2.
And the result:
I wish to knit an html file from an R Notebook that contains paged tables with hyperlinks.
Hyperlinks can be inserted using knitr::kable, but I can't find a way to generate a paged table with this function.
Paged tables are the default notebook output, but I can't find a way of inserting functional hyperlinks. Many thanks for your help.
---
title: "Paged notebook table with hyperlinks"
output:
html_notebook:
code_folding: "hide"
---
```{r rows.print=3}
wiki.url <- "https://en.wikipedia.org/wiki/"
df1 <- data.frame(Month=month.name, URL=paste0("[", month.name, "](", wiki.url, month.name, ")"))
df2 <- data.frame(Month=month.name, URL=paste0("<a href='", wiki.url, month.name, "'>", month.name, "</a>"))
print(df1)
```
```{r rows.print=3}
print(df2)
```
```{r rows.print=3}
knitr::kable(df1)
```
```{r rows.print=3}
knitr::kable(df2)
```
Since there doesn't seem to be a perfect solution to my problem, I thought I'd post the workaround that I came up with - in case someone has a similar problem.
I created the table plus hyperlinks with knitr::kable and then added an html button and inline javascript to toggle visibility - not as elegant as a paged table, but does the job.
Note the <script> tag at the bottom of the file that hides tables by default.
(Paste code into an .Rmd file in RStudio):
---
title: "Managing large tables with hyperlinks in html notebook"
output:
html_notebook:
code_folding: "hide"
---
<script>
function myFunction(id) {
var x = document.getElementById(id);
if (x.style.display === 'none') {
x.style.display = 'block';
} else {
x.style.display = 'none';
}
}
</script>
```{r}
library(knitr)
df1 <- data.frame(Month=month.name, Link=paste0("[", month.name, "](https://en.wikipedia.org/wiki/", month.name, ")"))
```
<button class="button" onclick="myFunction('DIV_months')">Show/hide table</button>
<div id="DIV_months" class="div_default_hide">
```{r}
knitr::kable(df1)
```
</div>
<script>
var divsToHide = document.getElementsByClassName("div_default_hide");
for(var i = 0; i < divsToHide.length; i++)
{
divsToHide[i].style.display = 'none';
}
</script>