Skip to content

Commit

Permalink
book
Browse files Browse the repository at this point in the history
  • Loading branch information
AgronomiaR committed Mar 24, 2020
0 parents commit 3e05f4b
Show file tree
Hide file tree
Showing 46 changed files with 3,878 additions and 0 deletions.
4 changes: 4 additions & 0 deletions .gitignore
Original file line number Diff line number Diff line change
@@ -0,0 +1,4 @@
.Rproj.user
.Rhistory
.RData
.Ruserdata
21 changes: 21 additions & 0 deletions 01-intro.Rmd
Original file line number Diff line number Diff line change
@@ -0,0 +1,21 @@
# Introduction {#intro}

You can label chapter and section titles using `{#label}` after them, e.g., we can reference Chapter \@ref(intro). If you do not manually label them, there will be automatic labels anyway, e.g., Chapter \@ref(methods).

Figures and tables with captions will be placed in `figure` and `table` environments, respectively.

```{r nice-fig, fig.cap='Here is a nice figure!', out.width='80%', fig.asp=.75, fig.align='center'}
par(mar = c(4, 4, .1, .1))
plot(pressure, type = 'b', pch = 19)
```

Reference a figure by its code chunk label with the `fig:` prefix, e.g., see Figure \@ref(fig:nice-fig). Similarly, you can reference tables generated from `knitr::kable()`, e.g., see Table \@ref(tab:nice-tab).

```{r nice-tab, tidy=FALSE}
knitr::kable(
head(iris, 20), caption = 'Here is a nice table!',
booktabs = TRUE
)
```

You can write citations, too. For example, we are using the **bookdown** package [@R-bookdown] in this sample book, which was built on top of R Markdown and **knitr** [@xie2015].
3 changes: 3 additions & 0 deletions 02-literature.Rmd
Original file line number Diff line number Diff line change
@@ -0,0 +1,3 @@
# Literature

Here is a review of existing methods.
3 changes: 3 additions & 0 deletions 03-method.Rmd
Original file line number Diff line number Diff line change
@@ -0,0 +1,3 @@
# Methods

We describe our methods in this chapter.
7 changes: 7 additions & 0 deletions 04-application.Rmd
Original file line number Diff line number Diff line change
@@ -0,0 +1,7 @@
# Applications

Some _significant_ applications are demonstrated in this chapter.

## Example one

## Example two
3 changes: 3 additions & 0 deletions 05-summary.Rmd
Original file line number Diff line number Diff line change
@@ -0,0 +1,3 @@
# Final Words

We have finished a nice book.
3 changes: 3 additions & 0 deletions 06-references.Rmd
Original file line number Diff line number Diff line change
@@ -0,0 +1,3 @@
`r if (knitr::is_html_output()) '
# References {-}
'`
1 change: 1 addition & 0 deletions README.md
Original file line number Diff line number Diff line change
@@ -0,0 +1 @@
This is a minimal example of a book based on R Markdown and **bookdown** (https://github.com/rstudio/bookdown). Please see the page "Get Started" at https://bookdown.org/home/about/ for how to compile this example.
6 changes: 6 additions & 0 deletions _bookdown.yml
Original file line number Diff line number Diff line change
@@ -0,0 +1,6 @@
output_dir: "docs"
book_filename: "livroagro"
delete_merged_file: true
language:
ui:
chapter_name: "Chapter "
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
10 changes: 10 additions & 0 deletions _output.yml
Original file line number Diff line number Diff line change
@@ -0,0 +1,10 @@
bookdown::gitbook:
css: style.css
config:
toc:
before: |
<li><a href="./">A Minimal Book Example</a></li>
after: |
<li><a href="https://github.com/rstudio/bookdown" target="blank">Published with bookdown</a></li>
download: ["pdf", "epub"]
bookdown::epub_book: default
10 changes: 10 additions & 0 deletions book.bib
Original file line number Diff line number Diff line change
@@ -0,0 +1,10 @@
@Book{xie2015,
title = {Dynamic Documents with {R} and knitr},
author = {Yihui Xie},
publisher = {Chapman and Hall/CRC},
address = {Boca Raton, Florida},
year = {2015},
edition = {2nd},
note = {ISBN 978-1498716963},
url = {http://yihui.org/knitr/},
}
249 changes: 249 additions & 0 deletions docs/applications.html
Original file line number Diff line number Diff line change
@@ -0,0 +1,249 @@
<!DOCTYPE html>
<html lang="" xml:lang="">
<head>

<meta charset="utf-8" />
<meta http-equiv="X-UA-Compatible" content="IE=edge" />
<title>Chapter 5 Applications | A Minimal Book Example</title>
<meta name="description" content="This is a minimal example of using the bookdown package to write a book. The output format for this example is bookdown::gitbook." />
<meta name="generator" content="bookdown 0.17 and GitBook 2.6.7" />

<meta property="og:title" content="Chapter 5 Applications | A Minimal Book Example" />
<meta property="og:type" content="book" />


<meta property="og:description" content="This is a minimal example of using the bookdown package to write a book. The output format for this example is bookdown::gitbook." />


<meta name="twitter:card" content="summary" />
<meta name="twitter:title" content="Chapter 5 Applications | A Minimal Book Example" />

<meta name="twitter:description" content="This is a minimal example of using the bookdown package to write a book. The output format for this example is bookdown::gitbook." />


<meta name="author" content="Yihui Xie" />


<meta name="date" content="2020-03-23" />

<meta name="viewport" content="width=device-width, initial-scale=1" />
<meta name="apple-mobile-web-app-capable" content="yes" />
<meta name="apple-mobile-web-app-status-bar-style" content="black" />


<link rel="prev" href="methods.html"/>
<link rel="next" href="final-words.html"/>
<script src="libs/jquery-2.2.3/jquery.min.js"></script>
<link href="libs/gitbook-2.6.7/css/style.css" rel="stylesheet" />
<link href="libs/gitbook-2.6.7/css/plugin-table.css" rel="stylesheet" />
<link href="libs/gitbook-2.6.7/css/plugin-bookdown.css" rel="stylesheet" />
<link href="libs/gitbook-2.6.7/css/plugin-highlight.css" rel="stylesheet" />
<link href="libs/gitbook-2.6.7/css/plugin-search.css" rel="stylesheet" />
<link href="libs/gitbook-2.6.7/css/plugin-fontsettings.css" rel="stylesheet" />
<link href="libs/gitbook-2.6.7/css/plugin-clipboard.css" rel="stylesheet" />











<style type="text/css">
code.sourceCode > span { display: inline-block; line-height: 1.25; }
code.sourceCode > span { color: inherit; text-decoration: inherit; }
code.sourceCode > span:empty { height: 1.2em; }
.sourceCode { overflow: visible; }
code.sourceCode { white-space: pre; position: relative; }
pre.sourceCode { margin: 0; }
@media screen {
div.sourceCode { overflow: auto; }
}
@media print {
code.sourceCode { white-space: pre-wrap; }
code.sourceCode > span { text-indent: -5em; padding-left: 5em; }
}
pre.numberSource code
{ counter-reset: source-line 0; }
pre.numberSource code > span
{ position: relative; left: -4em; counter-increment: source-line; }
pre.numberSource code > span > a:first-child::before
{ content: counter(source-line);
position: relative; left: -1em; text-align: right; vertical-align: baseline;
border: none; display: inline-block;
-webkit-touch-callout: none; -webkit-user-select: none;
-khtml-user-select: none; -moz-user-select: none;
-ms-user-select: none; user-select: none;
padding: 0 4px; width: 4em;
color: #aaaaaa;
}
pre.numberSource { margin-left: 3em; border-left: 1px solid #aaaaaa; padding-left: 4px; }
div.sourceCode
{ }
@media screen {
code.sourceCode > span > a:first-child::before { text-decoration: underline; }
}
code span.al { color: #ff0000; font-weight: bold; } /* Alert */
code span.an { color: #60a0b0; font-weight: bold; font-style: italic; } /* Annotation */
code span.at { color: #7d9029; } /* Attribute */
code span.bn { color: #40a070; } /* BaseN */
code span.bu { } /* BuiltIn */
code span.cf { color: #007020; font-weight: bold; } /* ControlFlow */
code span.ch { color: #4070a0; } /* Char */
code span.cn { color: #880000; } /* Constant */
code span.co { color: #60a0b0; font-style: italic; } /* Comment */
code span.cv { color: #60a0b0; font-weight: bold; font-style: italic; } /* CommentVar */
code span.do { color: #ba2121; font-style: italic; } /* Documentation */
code span.dt { color: #902000; } /* DataType */
code span.dv { color: #40a070; } /* DecVal */
code span.er { color: #ff0000; font-weight: bold; } /* Error */
code span.ex { } /* Extension */
code span.fl { color: #40a070; } /* Float */
code span.fu { color: #06287e; } /* Function */
code span.im { } /* Import */
code span.in { color: #60a0b0; font-weight: bold; font-style: italic; } /* Information */
code span.kw { color: #007020; font-weight: bold; } /* Keyword */
code span.op { color: #666666; } /* Operator */
code span.ot { color: #007020; } /* Other */
code span.pp { color: #bc7a00; } /* Preprocessor */
code span.sc { color: #4070a0; } /* SpecialChar */
code span.ss { color: #bb6688; } /* SpecialString */
code span.st { color: #4070a0; } /* String */
code span.va { color: #19177c; } /* Variable */
code span.vs { color: #4070a0; } /* VerbatimString */
code span.wa { color: #60a0b0; font-weight: bold; font-style: italic; } /* Warning */
</style>

<link rel="stylesheet" href="style.css" type="text/css" />
</head>

<body>



<div class="book without-animation with-summary font-size-2 font-family-1" data-basepath=".">

<div class="book-summary">
<nav role="navigation">

<ul class="summary">
<li><a href="./">A Minimal Book Example</a></li>

<li class="divider"></li>
<li class="chapter" data-level="1" data-path="index.html"><a href="index.html"><i class="fa fa-check"></i><b>1</b> Prerequisites</a></li>
<li class="chapter" data-level="2" data-path="intro.html"><a href="intro.html"><i class="fa fa-check"></i><b>2</b> Introduction</a></li>
<li class="chapter" data-level="3" data-path="literature.html"><a href="literature.html"><i class="fa fa-check"></i><b>3</b> Literature</a></li>
<li class="chapter" data-level="4" data-path="methods.html"><a href="methods.html"><i class="fa fa-check"></i><b>4</b> Methods</a></li>
<li class="chapter" data-level="5" data-path="applications.html"><a href="applications.html"><i class="fa fa-check"></i><b>5</b> Applications</a><ul>
<li class="chapter" data-level="5.1" data-path="applications.html"><a href="applications.html#example-one"><i class="fa fa-check"></i><b>5.1</b> Example one</a></li>
<li class="chapter" data-level="5.2" data-path="applications.html"><a href="applications.html#example-two"><i class="fa fa-check"></i><b>5.2</b> Example two</a></li>
</ul></li>
<li class="chapter" data-level="6" data-path="final-words.html"><a href="final-words.html"><i class="fa fa-check"></i><b>6</b> Final Words</a></li>
<li class="chapter" data-level="" data-path="references.html"><a href="references.html"><i class="fa fa-check"></i>References</a></li>
<li class="divider"></li>
<li><a href="https://github.com/rstudio/bookdown" target="blank">Published with bookdown</a></li>

</ul>

</nav>
</div>

<div class="book-body">
<div class="body-inner">
<div class="book-header" role="navigation">
<h1>
<i class="fa fa-circle-o-notch fa-spin"></i><a href="./">A Minimal Book Example</a>
</h1>
</div>

<div class="page-wrapper" tabindex="-1" role="main">
<div class="page-inner">

<section class="normal" id="section-">
<div id="applications" class="section level1">
<h1><span class="header-section-number">Chapter 5</span> Applications</h1>
<p>Some <em>significant</em> applications are demonstrated in this chapter.</p>
<div id="example-one" class="section level2">
<h2><span class="header-section-number">5.1</span> Example one</h2>
</div>
<div id="example-two" class="section level2">
<h2><span class="header-section-number">5.2</span> Example two</h2>

</div>
</div>
</section>

</div>
</div>
</div>
<a href="methods.html" class="navigation navigation-prev " aria-label="Previous page"><i class="fa fa-angle-left"></i></a>
<a href="final-words.html" class="navigation navigation-next " aria-label="Next page"><i class="fa fa-angle-right"></i></a>
</div>
</div>
<script src="libs/gitbook-2.6.7/js/app.min.js"></script>
<script src="libs/gitbook-2.6.7/js/lunr.js"></script>
<script src="libs/gitbook-2.6.7/js/clipboard.min.js"></script>
<script src="libs/gitbook-2.6.7/js/plugin-search.js"></script>
<script src="libs/gitbook-2.6.7/js/plugin-sharing.js"></script>
<script src="libs/gitbook-2.6.7/js/plugin-fontsettings.js"></script>
<script src="libs/gitbook-2.6.7/js/plugin-bookdown.js"></script>
<script src="libs/gitbook-2.6.7/js/jquery.highlight.js"></script>
<script src="libs/gitbook-2.6.7/js/plugin-clipboard.js"></script>
<script>
gitbook.require(["gitbook"], function(gitbook) {
gitbook.start({
"sharing": {
"github": false,
"facebook": true,
"twitter": true,
"linkedin": false,
"weibo": false,
"instapaper": false,
"vk": false,
"all": ["facebook", "twitter", "linkedin", "weibo", "instapaper"]
},
"fontsettings": {
"theme": "white",
"family": "sans",
"size": 2
},
"edit": {
"link": null,
"text": null
},
"history": {
"link": null,
"text": null
},
"view": {
"link": null,
"text": null
},
"download": ["livroagro.pdf", "livroagro.epub"],
"toc": {
"collapse": "subsection"
}
});
});
</script>

<!-- dynamically load mathjax for compatibility with self-contained -->
<script>
(function () {
var script = document.createElement("script");
script.type = "text/javascript";
var src = "true";
if (src === "" || src === "true") src = "https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-MML-AM_CHTML";
if (location.protocol !== "file:")
if (/^https?:/.test(src))
src = src.replace(/^https?:/, '');
script.src = src;
document.getElementsByTagName("head")[0].appendChild(script);
})();
</script>
</body>

</html>
Loading

0 comments on commit 3e05f4b

Please sign in to comment.