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<head>
<title>testing</title>
<meta http-equiv="Content-Type" content="text/html;charset=iso-8859-1"/>
<meta name="generator" content="Org-mode"/>
<meta name="generated" content="2009-02-05 15:41:29 PST"/>
<meta name="author" content="Eric Schulte"/>
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</head><body>
<h1 class="title">testing</h1>


<div id="table-of-contents">
<h2>Table of Contents</h2>
<div id="text-table-of-contents">
<ul>
<li><a href="#sec-1">1 Sweave and org-mode </a>
<ul>
<li><a href="#sec-1.1">1.1 Use the Sweave package for latex formatting </a></li>
<li><a href="#sec-1.2">1.2 R blocks </a>
<ul>
<li><a href="#sec-1.2.1">1.2.1 R code that is not printed </a></li>
<li><a href="#sec-1.2.2">1.2.2 R code that is printed </a></li>
<li><a href="#sec-1.2.3">1.2.3 R code that references other blocks </a></li>
</ul>
</li>
<li><a href="#sec-1.3">1.3 Inline references to R data </a>
<ul>
<li><a href="#sec-1.3.1">1.3.1 Used in text </a></li>
<li><a href="#sec-1.3.2">1.3.2 Used in a table </a></li>
</ul>
</li>
<li><a href="#sec-1.4">1.4 Single-line R commands </a></li>
<li><a href="#sec-1.5">1.5 Graphics </a></li>
</ul>
</li>
</ul>
</div>
</div>

<div id="outline-container-1" class="outline-2">
<h2 id="sec-1">1 Sweave and org-mode </h2>
<div id="text-1">

<p>If you're reading a PDF version of this document, you should also
look at <a href="testing.Rorg">testing.Rorg</a> (the source file) and <a href="testing.html">testing.org</a> (the output
of the Sweave process).
</p>
<p>
Keep in mind that one of the advantages of a block-based approach is
using \texttt{C-'} to edit code in its native mode.
</p>

</div>

<div id="outline-container-1.1" class="outline-3">
<h3 id="sec-1.1">1.1 Use the Sweave package for latex formatting </h3>
<div id="text-1.1">

<p>Org allows us to issue commands to be included in \{LaTeX} export.
</p>
</div>

</div>

<div id="outline-container-1.2" class="outline-3">
<h3 id="sec-1.2">1.2 R blocks </h3>
<div id="text-1.2">

<p>The first argument to an R block when using Sweave is the label for
that block.
</p>
<p>
Not all R blocks are printed.  Sweave options allow the printing of
the evaluated code, the output of the code, both, or neither.
</p>

</div>

<div id="outline-container-1.2.1" class="outline-4">
<h4 id="sec-1.2.1">1.2.1 R code that is not printed </h4>
<div id="text-1.2.1">


<div id="R-1">
<pre>
>    a <- 3
>    b <- 6
</pre>
</div>

</div>

</div>

<div id="outline-container-1.2.2" class="outline-4">
<h4 id="sec-1.2.2">1.2.2 R code that is printed </h4>
<div id="text-1.2.2">


<div id="R-2">
<pre>
>    c <- 4
</pre>
</div>

<p>
We can use block labels to embed blocks by reference (even if they
weren't printed before).
</p></div>

</div>

<div id="outline-container-1.2.3" class="outline-4">
<h4 id="sec-1.2.3">1.2.3 R code that references other blocks </h4>
<div id="text-1.2.3">


<div id="R-3">
<pre>
> #+R_CODEREF:  hidden_block
> #+R_CODEREF:  visible_block
>    a + b +c
</pre>
</div>

</div>
</div>

</div>

<div id="outline-container-1.3" class="outline-3">
<h3 id="sec-1.3">1.3 Inline references to R data </h3>
<div id="text-1.3">

<p>We can evaluate R code inline.
</p>
</div>

<div id="outline-container-1.3.1" class="outline-4">
<h4 id="sec-1.3.1">1.3.1 Used in text </h4>
<div id="text-1.3.1">

<p>The value of <code>a</code> is 3.
</p>
</div>

</div>

<div id="outline-container-1.3.2" class="outline-4">
<h4 id="sec-1.3.2">1.3.2 Used in a table </h4>
<div id="text-1.3.2">

<table border="2" cellspacing="0" cellpadding="6" rules="groups" frame="hsides">
<col align="left"></col><col align="left"></col><col align="left"></col><col align="left"></col>
<thead>
<tr><th>a</th><th>b</th><th>c</th><th>TOTAL</th></tr>
</thead>
<tbody>
<tr><td>3</td><td>6</td><td>4</td><td>13</td></tr>
</tbody>
</table>


</div>
</div>

</div>

<div id="outline-container-1.4" class="outline-3">
<h3 id="sec-1.4">1.4 Single-line R commands </h3>
<div id="text-1.4">

<p>If we want a line of R code to be evaluated but not printed,
there's a convenient shorthand.  This only works for single lines
of R code, but you can have more than one in a row.
</p>
</div>

</div>

<div id="outline-container-1.5" class="outline-3">
<h3 id="sec-1.5">1.5 Graphics </h3>
<div id="text-1.5">

<p>We use values defined elsewhere in the buffer to produce this
graph.  The new CAPTION and LABEL arguments work just fine.
</p>


<div id="R-4">
<pre>
> print(xyplot(speed ~ dist, cars,
>        panel = function (x, y, ...) {
>          panel.xyplot(x, y, ...)
>          panel.abline(h=a)
>          panel.abline(v=b)
>        }))
</pre>
</div>
<p>
<a href="e.eps">file:e.eps</a>
</p></div>
</div>
</div>
<div id="postamble"><p class="author"> Author: Eric Schulte
<a href="mailto:schulte.eric@gmail.com">&lt;schulte.eric@gmail.com&gt;</a>
</p>
<p class="date"> Date: 2009-02-05 15:41:29 PST</p>
<p>HTML generated by org-mode 6.20f in emacs 23</p>
</div></body>
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