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R_workshop_description_MH-Burle.html
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<div id="preamble" class="status">
<span style="color:#596a73; font-size:16px"><b>Marie-Hélène Burle</b><br>April 19, 2018</span>
</div>
<div id="content">
<h1 class="title">Better practices in R,<br>no more copy-paste, no more loops</h1>
<div id="table-of-contents">
<h2>Table of Contents</h2>
<div id="text-table-of-contents">
<ul>
<li><a href="#org730879b">Goal</a>
<ul>
<li><a href="#orga7aa7c6">Example</a></li>
</ul>
</li>
<li><a href="#org1279051">Target audience</a></li>
<li><a href="#org16cf5eb">Program</a></li>
<li><a href="#orgbc8c319">Software requirements</a></li>
</ul>
</div>
</div>
<div id="outline-container-org730879b" class="outline-2">
<h2 id="org730879b">Goal</h2>
<div class="outline-text-2" id="text-org730879b">
<p>
Code more efficiently and develop better R practices: replace repetitions, loops, and lengthy code prone to error by clean functions using the package <span style="padding: 0em 0.2em 0em 0.2em; color: #000000; background-color: #f9b9b9; border-radius: 3px">purrr</span>. Purrr is the tidyverse equivalent to the <code class="src src-R"><span class="org-ess-function-call">apply</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">()</span></span></code> functions, but it has more tools and it is more consistent.<br />
</p>
</div>
<div id="outline-container-orga7aa7c6" class="outline-3">
<h3 id="orga7aa7c6">Example</h3>
<div class="outline-text-3" id="text-orga7aa7c6">
<div class="VERBATIM">
<p>
Create a named vector with the maximum values of all the variables in the mtcars dataset.<br />
</p>
</div>
<p class="verse">
Copy-paste method:<br />
</p>
<p>
Don't do this! It is a hard-coding practice prone to error. Not to mention, very tedious…<br />
</p>
<div class="org-src-container">
<pre class="src src-R"><span class="org-ess-function-call">setNames</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">(</span></span>
<span class="org-ess-function-call">c</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-2">(</span></span><span class="org-ess-function-call">max</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">[</span></span><span class="org-ess-numbers">1</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">]</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">)</span></span>,
<span class="org-ess-function-call">max</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">[</span></span><span class="org-ess-numbers">2</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">]</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">)</span></span>,
<span class="org-ess-function-call">max</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">[</span></span><span class="org-ess-numbers">3</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">]</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">)</span></span>,
<span class="org-ess-function-call">max</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">[</span></span><span class="org-ess-numbers">4</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">]</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">)</span></span>,
<span class="org-ess-function-call">max</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">[</span></span><span class="org-ess-numbers">5</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">]</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">)</span></span>,
<span class="org-ess-function-call">max</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">[</span></span><span class="org-ess-numbers">6</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">]</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">)</span></span>,
<span class="org-ess-function-call">max</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">[</span></span><span class="org-ess-numbers">7</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">]</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">)</span></span>,
<span class="org-ess-function-call">max</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">[</span></span><span class="org-ess-numbers">8</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">]</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">)</span></span>,
<span class="org-ess-function-call">max</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">[</span></span><span class="org-ess-numbers">9</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">]</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">)</span></span>,
<span class="org-ess-function-call">max</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">[</span></span><span class="org-ess-numbers">10</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">]</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">)</span></span>,
<span class="org-ess-function-call">max</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">[</span></span><span class="org-ess-numbers">11</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">]</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">)</span></span>
<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-2">)</span></span>,
<span class="org-ess-function-call">names</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-2">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-2">)</span></span>
<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">)</span></span>
</pre>
</div>
<p class="verse">
For loop method:<br />
</p>
<div class="org-src-container">
<pre class="src src-R">max <span class="org-ess-assignment"><-</span> <span class="org-ess-function-call">vector</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">(</span></span><span class="org-string">"double"</span>, <span class="org-ess-function-call">ncol</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-2">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-2">)</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">)</span></span>
<span class="org-ess-keyword">for</span> <span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">(</span></span>i <span class="org-ess-keyword">in</span> <span class="org-ess-function-call">seq_along</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-2">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-2">)</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">)</span></span> <span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">{</span></span>
max<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-2">[</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">[</span></span>i<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">]</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-2">]</span></span> <span class="org-ess-assignment"><-</span> <span class="org-ess-function-call">max</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-2">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">[</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">[</span></span>i<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-4">]</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-3">]</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-2">)</span></span>
<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">}</span></span>
<span class="org-ess-function-call">setNames</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">(</span></span>max, <span class="org-ess-function-call">names</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-2">(</span></span>mtcars<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-2">)</span></span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">)</span></span>
</pre>
</div>
<p class="verse">
Purrr method (yeah!):<br />
</p>
<div class="org-src-container">
<pre class="src src-R"><span class="org-ess-function-call">map_dbl</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">(</span></span>mtcars, max<span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">)</span></span>
</pre>
</div>
</div>
</div>
</div>
<div id="outline-container-org1279051" class="outline-2">
<h2 id="org1279051">Target audience</h2>
<div class="outline-text-2" id="text-org1279051">
<ul class="org-ul">
<li>Intermediate R users comfortable with basic data manipulation and simple functions, or<br /></li>
<li>Advanced users familiar with functional programming using the <code class="src src-R"><span class="org-ess-function-call">apply</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">()</span></span></code> functions family and interested in discovering the "purrring" way.<br /></li>
</ul>
</div>
</div>
<div id="outline-container-org16cf5eb" class="outline-2">
<h2 id="org16cf5eb">Program</h2>
<div class="outline-text-2" id="text-org16cf5eb">
<ul class="org-ul">
<li>Quick tips for better reproducibility, portability, and code readability,<br /></li>
<li>Introduction to functional programming with the tidyverse package purrr.<br /></li>
</ul>
<p>
For more information, please visit the <a href="https://prosoitos.github.io/International-Ornithological-Congress_r-workshops/">workshop webpage</a>.<br />
</p>
</div>
</div>
<div id="outline-container-orgbc8c319" class="outline-2">
<h2 id="orgbc8c319">Software requirements</h2>
<div class="outline-text-2" id="text-orgbc8c319">
<p>
In order to make the best of this workshop, please bring a laptop with the following installed:<br />
</p>
<ul class="org-ul">
<li>the <b>latest</b> R version (if you usually run R in RStudio, make sure that you also have the latest RStudio),<br /></li>
<li>the <b>latest</b> version of the tidyverse package,<br /></li>
<li>the <b>latest</b> version of the patchwork package.<br /></li>
</ul>
<p>
At the time of this writing, the patchwork package is not yet on CRAN and can be installed by running:<br />
</p>
<div class="org-src-container">
<pre class="src src-R"><span class="org-ess-function-call">install.packages</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">(</span></span><span class="org-string">"devtools"</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">)</span></span> <span class="org-comment-delimiter"># </span><span class="org-comment">if you haven't installed it already</span>
devtools::<span class="org-ess-function-call">install_github</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">(</span></span><span class="org-string">"thomasp85/patchwork"</span><span class="org-ess-paren"><span class="org-rainbow-delimiters-depth-1">)</span></span>
</pre>
</div>
<p>
No data file is needed for this workshop.<br />
</p>
<p>
Please make sure everything is running before coming. Thank you and see you there!<br />
</p>
<br>
<hr />
<p>
<i>Contact: Marie-Helene Burle, msb2@sfu.ca</i><br />
</p>
</div>
</div>
</div>
</body>
</html>