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<div id="TOC" class="tocify">
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<div class="toc-content col-xs-12 col-sm-8 col-md-9">
<div class="navbar navbar-default navbar-fixed-top" role="navigation">
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<a href="Lesson3.html">Lesson 3</a>
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<button type="button" class="btn btn-default btn-xs dropdown-toggle" data-toggle="dropdown" aria-haspopup="true" aria-expanded="false"><span>Code</span> <span class="caret"></span></button>
<ul class="dropdown-menu" style="min-width: 50px;">
<li><a id="rmd-show-all-code" href="#">Show All Code</a></li>
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</ul>
</div>
</div>
<!-- ---------------------------------------------------------------- -->
<!-- ----------------------- rmd settings --------------------------- -->
<!-- ---------------------------------------------------------------- -->
<!-- rmd settings -->
<!-- install packages -->
<!-- ____________________________________________________________________________ -->
<!-- ____________________________________________________________________________ -->
<!-- ____________________________________________________________________________ -->
<!-- start body -->
<div id="welcome-to-the-emory-coding-club" class="section level1">
<h1>Welcome to the Emo<code>R</code>y Coding Club</h1>
<p> </p>
<!-- ----------------------- overview --------------------------- -->
<div id="overview" class="section level2">
<h2>Overview</h2>
<p>This page contains all the documents, links, and information for the monthly <code>R</code> coding club held in the Department of Biology, Emory University. We meet monthly and introduce new coding concepts and techniques in a casual working environment. The club is half lesson half workshop style and caters for all coding, <code>R</code>, and research levels.<br />
</p>
</div>
<div id="organisers" class="section level2">
<h2>Organisers</h2>
<p><strong>Matt Malishev, Department of Biology</strong><br />
<strong>Desiree de Leon, Yerkes National Primate Research Center</strong><br />
<strong>Hasse Walum, Yerkes National Primate Research Center</strong></p>
<p> <!-- ----------------------- image --------------------------- --></p>
<p><img src="img/mm.jpg" width="33%" style = 'display: inline;' style="display: block; margin: auto;" /><img src="img/ddl.jpeg" width="33%" style = 'display: inline;' style="display: block; margin: auto;" /><img src="img/hw.jpg" width="33%" style = 'display: inline;' style="display: block; margin: auto;" /></p>
<!-- ----------------------- image --------------------------- -->
<!-- \ -->
<!-- ## Date for next session -->
<!-- Time and day TBC -->
<p> </p>
</div>
<div id="location" class="section level2">
<h2>Location</h2>
<p>Emory University<br />
Room 2052<br />
Wayne Rollins Building<br />
(Click on marker for room directions)<br />
</p>
<div id="htmlwidget-099d417eb56a34fbd7db" style="width:672px;height:480px;" class="leaflet html-widget"></div>
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<p> </p>
<!-- ----------------------- 1 before arrival --------------------------- -->
</div>
</div>
<div id="before-you-arrive" class="section level1">
<h1>Before you arrive</h1>
<p>Everyone needs to have the following software and packages loaded before you come to the first session. That way, we can get straight into it.</p>
<ul>
<li><a href="https://www.r-project.org/">Install <code>R</code> from CRAN</a>.</li>
<li>If you’re asked to choose a CRAN mirror, just choose whichever is closest to your location.<br />
</li>
<li><a href="https://www.rstudio.com/products/rstudio/download/">Install <code>RStudio</code> Desktop</a></li>
<li>Install the <code>tidyverse</code> package and then load it by copying and pasting the following code into the <em>Console</em> of <code>RStudio</code> and then pressing <em>Enter</em> to execute it.</li>
</ul>
<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r"><span class="kw">install.packages</span>(<span class="st">"tidyverse"</span>)
<span class="kw">install.packages</span>(<span class="st">"ggplot2"</span>)
<span class="kw">library</span>(tidyverse)
<span class="kw">library</span>(ggplot2)</code></pre></div>
<p> </p>
<div id="if-you-have-used-r-previously-you-can-skip-to-learning-objectives." class="section level3">
<h3>If you have used <code>R</code> previously, you can skip to <a href="#sec3">‘Learning Objectives’</a>.</h3>
<p> </p>
<p><br></p>
<!-- ----------------------- 2 pre check --------------------------- -->
</div>
</div>
<div id="pre-work-questions" class="section level1">
<h1>Pre-work questions</h1>
<p>If you’re brand new to <code>R</code> or coding, familiarise yourself with a few basic things about <code>R Studio</code> and coding in <code>R</code>. The exercise below should take less than 5 minutes.</p>
<p>Once you have installed <code>R</code> and <code>R Studio</code>, copy and paste the code below into the <code>R Studio</code> <em>Console</em> (or try typing it out yourself) and press <em>Enter</em> to run it.</p>
<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r"><span class="co"># Calculate something simple</span>
<span class="dv">2</span> <span class="op">+</span><span class="st"> </span><span class="dv">2</span>
<span class="co"># Calculate something using built-in constants</span>
<span class="dv">2</span> <span class="op">*</span><span class="st"> </span>pi</code></pre></div>
<p><br></p>
<p>Use the <em>assignment operator</em>, <code><-</code>, to create new objects in <code>R</code></p>
<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r">a <-<span class="st"> </span><span class="dv">2</span> <span class="op">+</span><span class="st"> </span><span class="dv">2</span>
b <-<span class="st"> </span>a <span class="op">*</span><span class="st"> </span>pi
c <-<span class="st"> "Hello World"</span></code></pre></div>
<p>And then print the objects in the console:</p>
<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r">a
b
c</code></pre></div>
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<p><a id="sec3"></a></p>
</div>
<div id="learning-objectives" class="section level1">
<h1>Learning Objectives</h1>
<p>Our first EmoRy Coding Club will be primarily targeted towards beginners, but we hope this will also useful for anyone who may already be familiar with base <code>R</code> and wanting better practice with the <code>tidyverse</code> package.</p>
<ol style="list-style-type: decimal">
<li>Introducing beginners to the <code>RStudio</code> IDE</li>
<li>Doing some introductory plotting with <code>ggplot</code></li>
</ol>
<p>We will use the <a href="https://r4ds.had.co.nz/index.html">R for Data Science</a> free online text to guide us through learning <code>R</code>.</p>
<!-- ----------------------- image --------------------------- -->
<div align="center" ;="" text-align:center="">
<p><img src="img/cover.png" style=width:33%></p>
</div>
<!-- ----------------------- image --------------------------- -->
<p><br></p>
<!-- ----------------------- 4 materials --------------------------- -->
</div>
<div id="materials" class="section level1">
<h1>Materials</h1>
<p>We’ll be diving into <a href="https://r4ds.had.co.nz/data-visualisation.html">Ch 3, Data visualisation</a> and working through Section 3.3.1. </p>
<div id="the-dataset" class="section level3">
<h3>The dataset</h3>
<p>We’ll also be using <a href="http://insideairbnb.com/new-york-city/">open-access data of housing listings from AirBnb</a> as our toy dataset. Once we’ve completed the above <strong>R for Data Science exercises</strong>, we’ll repeat the plotting exercise using these data.<br />
</p>
<p>We’ll be using this dataset for the rest of the club sessions, so feel free to explore it in your own time.<br />
</p>
<!-- ----------------------- image --------------------------- -->
<div align="center" ;="" text-align:center="">
<p><img src="img/nyc.jpg" style=width:100%></p>
</div>
<!-- ----------------------- image --------------------------- -->
<p>This is a really big data set (it has ~50k rows !!), so it will take a moment to run. To import the AirBnb data from the URL, copy and paste the lines of code below in your <code>R</code> console and press <em>Enter</em>.</p>
<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r"><span class="kw">require</span>(readr)
url <-<span class="st"> "http://data.insideairbnb.com/united-states/ny/new-york-city/2019-06-02/data/listings.csv.gz"</span>
nyc_full <-<span class="st"> </span><span class="kw">read_csv</span>(url)
<span class="co"># smaller csv file (16 cols)</span>
url <-<span class="st"> "http://data.insideairbnb.com/united-states/ny/new-york-city/2019-06-02/visualisations/listings.csv"</span>
nyc <-<span class="st"> </span><span class="kw">read_csv</span>(url)
nyc <-<span class="st"> </span>nyc[nyc<span class="op">$</span>id <span class="op"><</span><span class="st"> </span><span class="fl">1e+06</span>, ] <span class="co"># truncate dataset </span>
<span class="kw">head</span>(nyc[, <span class="dv">1</span><span class="op">:</span><span class="dv">5</span>])</code></pre></div>
<p>If everything worked correctly, you should see the below ouput printed in your <code>R</code> console.</p>
<pre><code># A tibble: 6 x 5
id name host_id host_name neighbourhood_group
<dbl> <chr> <dbl> <chr> <chr>
1 2539 Clean & quiet apt home by the park 2787 John Brooklyn
2 2595 Skylit Midtown Castle 2845 Jennifer Manhattan
3 3647 THE VILLAGE OF HARLEM....NEW YORK ! 4632 Elisabeth Manhattan
4 3831 Cozy Entire Floor of Brownstone 4869 LisaRoxanne Brooklyn
5 4989 Great 1 bdrm. apartment in the PERFECT location! 7118 New-Yorker Manhattan
6 5022 Entire Apt: Spacious Studio/Loft by central park 7192 Laura Manhattan </code></pre>
<p> </p>
<div id="save-and-use-the-above-code-snippet-whenever-you-need-to-load-our-two-datasets-nyc_full-and-nyc-as-well-be-using-them-regularly-throughout-the-club-sessions." class="section level4">
<h4>Save and use the above code snippet whenever you need to load our two datasets, <code>nyc_full</code> and <code>nyc</code>, as we’ll be using them regularly throughout the club sessions.</h4>
</div>
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