-
Notifications
You must be signed in to change notification settings - Fork 1
/
index.Rmd
64 lines (44 loc) · 2.33 KB
/
index.Rmd
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
---
title: "Histological Protocols"
author: "Altshuler Lab"
date: "`r Sys.Date()`"
site: bookdown::bookdown_site
documentclass: book
bibliography: [book.bib, packages.bib]
url: https://flightlab.github.io/histological_protocols/
# cover-image: path to the social sharing image like images/cover.jpg
description: |
This is a minimal example of using the bookdown package to write a book.
The HTML output format for this example is bookdown::gitbook,
set in the _output.yml file.
link-citations: yes
github-repo: flightlab/histological_protocols
---
# About
This is a _sample_ book written in **Markdown**. You can use anything that Pandoc's Markdown supports; for example, a math equation $a^2 + b^2 = c^2$.
## Usage
Each **bookdown** chapter is an .Rmd file, and each .Rmd file can contain one (and only one) chapter. A chapter *must* start with a first-level heading: `# A good chapter`, and can contain one (and only one) first-level heading
Use second-level and higher headings within chapters like: `## A short section` or `### An even shorter section`.
The `index.Rmd` file is required, and is also your first book chapter. It will be the homepage when you render the book.
## Render book
You can render the HTML version of this example book without changing anything:
1. Find the **Build** pane in the RStudio IDE, and
1. Click on **Build Book**, then select your output format, or select "All formats" if you'd like to use multiple formats from the same book source files.
Or build the book from the R console:
```{r, eval=FALSE}
bookdown::render_book()
```
To render this example to PDF as a `bookdown::pdf_book`, you'll need to install XeLaTeX. You are recommended to install TinyTeX (which includes XeLaTeX): <https://yihui.org/tinytex/>.
## Preview book
As you work, you may start a local server to live preview this HTML book. This preview will update as you edit the book when you save individual .Rmd files. You can start the server in a work session by using the RStudio add-in "Preview book", or from the R console:
```{r eval=FALSE}
bookdown::serve_book()
```
```{r include=FALSE}
# automatically create a bib database for R packages
knitr::write_bib(c(
.packages(), 'bookdown', 'knitr', 'rmarkdown'
), 'packages.bib')
```
## Histology flowchart
{width="100%" height="1000"}