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  <main id="main" class="col-md-9"><div class="page-header">
      <img src="../logo.png" class="logo" alt=""><h1>Contour Plots</h1>
            
      
      <small class="dont-index">Source: <a href="https://github.com/n8thangreen/BCEA/blob/HEAD/vignettes/contour.Rmd" class="external-link"><code>vignettes/contour.Rmd</code></a></small>
      <div class="d-none name"><code>contour.Rmd</code></div>
    </div>

    
    
<div class="section level2">
<h2 id="introduction">Introduction<a class="anchor" aria-label="anchor" href="#introduction"></a>
</h2>
<p>The intention of this vignette is to show how to plot different
styles of contour plot using the BCEA package and the
<code><a href="../reference/contour.html">contour()</a></code> and <code><a href="../reference/contour2.html">contour2()</a></code> functions.</p>
<div class="section level4">
<h4 id="r-code">R code<a class="anchor" aria-label="anchor" href="#r-code"></a>
</h4>
<p>To calculate these in BCEA we use the <code><a href="../reference/bcea.html">bcea()</a></code>
function.</p>
<div class="sourceCode" id="cb1"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/Smoking.html">data</a></span><span class="op">(</span><span class="st">"Vaccine"</span><span class="op">)</span></span>
<span><span class="va">he</span> <span class="op">&lt;-</span> <span class="fu"><a href="../reference/bcea.html">bcea</a></span><span class="op">(</span><span class="va">eff</span>, <span class="va">cost</span>, ref <span class="op">=</span> <span class="fl">2</span><span class="op">)</span></span></code></pre></div>
<p>The plot defaults to base R plotting. Type of plot can be set
explicitly using the <code>graph</code> argument.</p>
<div class="sourceCode" id="cb2"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, graph <span class="op">=</span> <span class="st">"base"</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-3-1.png" width="576"></p>
<div class="sourceCode" id="cb3"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, graph <span class="op">=</span> <span class="st">"ggplot2"</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-3-2.png" width="576"></p>
<div class="sourceCode" id="cb4"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="co"># ceac.plot(he, graph = "plotly")</span></span></code></pre></div>
<p>User-defined contour levels can be provided. The <code>levels</code>
and <code>nlevels</code> arguments specify the quantiles or number of
levels. The base R levels arguments are kept for back-compatibility and
the <code>ggplot2</code> style arguments are used in the associated
plot.</p>
<div class="sourceCode" id="cb5"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, levels <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">0.2</span>, <span class="fl">0.8</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-4-1.png" width="576"></p>
<div class="sourceCode" id="cb6"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, graph <span class="op">=</span> <span class="st">"ggplot2"</span>, contour <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>breaks <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">0.2</span>, <span class="fl">0.8</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-4-2.png" width="576"></p>
<p>Other plotting arguments can be specified such as title, line colour
and thickness and type of point.</p>
<div class="sourceCode" id="cb7"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>,</span>
<span>        graph <span class="op">=</span> <span class="st">"ggplot2"</span>,</span>
<span>        title <span class="op">=</span> <span class="st">"my title"</span>,</span>
<span>        point <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="st">"blue"</span>, shape <span class="op">=</span> <span class="fl">2</span>, size <span class="op">=</span> <span class="fl">5</span><span class="op">)</span>,</span>
<span>        contour <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>size <span class="op">=</span> <span class="fl">2</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-5-1.png" width="576"></p>
<div class="sourceCode" id="cb8"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>,</span>
<span>        graph <span class="op">=</span> <span class="st">"base"</span>,</span>
<span>        title <span class="op">=</span> <span class="st">"my title"</span>,</span>
<span>        point <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="st">"blue"</span>, shape <span class="op">=</span> <span class="fl">2</span>, size <span class="op">=</span> <span class="fl">2</span><span class="op">)</span>,</span>
<span>        contour <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>size <span class="op">=</span> <span class="fl">2</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-6-1.png" width="576"></p>
<p>Alternatively, the <code><a href="../reference/contour2.html">contour2()</a></code> function is essentially a
wrapper for <code><a href="../reference/ceplane.plot.html">ceplane.plot()</a></code> with the addition of contour
lines.</p>
<div class="sourceCode" id="cb9"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour2.html">contour2</a></span><span class="op">(</span><span class="va">he</span>, graph <span class="op">=</span> <span class="st">"base"</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-7-1.png" width="576"></p>
<div class="sourceCode" id="cb10"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour2.html">contour2</a></span><span class="op">(</span><span class="va">he</span>, graph <span class="op">=</span> <span class="st">"ggplot2"</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-7-2.png" width="576"></p>
<div class="sourceCode" id="cb11"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="co"># ceac.plot(he, graph = "plotly")</span></span></code></pre></div>
<p>Other plotting arguments can be specified in exactly the same way as
above.</p>
<div class="sourceCode" id="cb12"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour2.html">contour2</a></span><span class="op">(</span><span class="va">he</span>,</span>
<span>         graph <span class="op">=</span> <span class="st">"ggplot2"</span>,</span>
<span>         title <span class="op">=</span> <span class="st">"my title"</span>,</span>
<span>         point <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="st">"blue"</span>, shape <span class="op">=</span> <span class="fl">10</span>, size <span class="op">=</span> <span class="fl">5</span><span class="op">)</span>,</span>
<span>         contour <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>size <span class="op">=</span> <span class="fl">2</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-8-1.png" width="576"></p>
<div class="sourceCode" id="cb13"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour2.html">contour2</a></span><span class="op">(</span><span class="va">he</span>,</span>
<span>         graph <span class="op">=</span> <span class="st">"base"</span>,</span>
<span>         title <span class="op">=</span> <span class="st">"my title"</span>,</span>
<span>         point <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="st">"blue"</span>, shape <span class="op">=</span> <span class="fl">2</span>, size <span class="op">=</span> <span class="fl">3</span><span class="op">)</span>,</span>
<span>         contour <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>size <span class="op">=</span> <span class="fl">4</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-9-1.png" width="576"></p>
</div>
</div>
<div class="section level2">
<h2 id="multiple-interventions">Multiple interventions<a class="anchor" aria-label="anchor" href="#multiple-interventions"></a>
</h2>
<p>This situation is when there are more than two interventions to
consider.</p>
<div class="section level4">
<h4 id="r-code-1">R code<a class="anchor" aria-label="anchor" href="#r-code-1"></a>
</h4>
<div class="sourceCode" id="cb14"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/Smoking.html">data</a></span><span class="op">(</span><span class="st">"Smoking"</span><span class="op">)</span></span>
<span><span class="va">he</span> <span class="op">&lt;-</span> <span class="fu"><a href="../reference/bcea.html">bcea</a></span><span class="op">(</span><span class="va">eff</span>, <span class="va">cost</span>, ref <span class="op">=</span> <span class="fl">4</span><span class="op">)</span></span>
<span><span class="co"># str(he)</span></span></code></pre></div>
<p>Because there are multiple groups then the quadrant annotation is
omitted.</p>
<div class="sourceCode" id="cb15"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-11-1.png" width="576"></p>
<div class="sourceCode" id="cb16"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, graph <span class="op">=</span> <span class="st">"ggplot2"</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-11-2.png" width="576"></p>
<p>The <code>scale</code> argument determines the smoothness of the
contours.</p>
<div class="sourceCode" id="cb17"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, scale <span class="op">=</span> <span class="fl">0.9</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-12-1.png" width="576"></p>
<div class="sourceCode" id="cb18"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, graph <span class="op">=</span> <span class="st">"ggplot2"</span>, scale <span class="op">=</span> <span class="fl">0.9</span><span class="op">)</span>  <span class="co">##TODO: what is the equivalent ggplot2 argument?</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-12-2.png" width="576"></p>
<p>The quantiles or number of levels.</p>
<div class="sourceCode" id="cb19"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, nlevels <span class="op">=</span> <span class="fl">10</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-13-1.png" width="576"></p>
<div class="sourceCode" id="cb20"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, graph <span class="op">=</span> <span class="st">"ggplot2"</span>, contour <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>bins <span class="op">=</span> <span class="fl">10</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-13-2.png" width="576"></p>
<div class="sourceCode" id="cb21"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, levels <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">0.2</span>, <span class="fl">0.8</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-14-1.png" width="576"></p>
<div class="sourceCode" id="cb22"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, graph <span class="op">=</span> <span class="st">"ggplot2"</span>, contour <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>breaks <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">0.2</span>, <span class="fl">0.8</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-14-2.png" width="576"></p>
<div class="sourceCode" id="cb23"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>,</span>
<span>        graph <span class="op">=</span> <span class="st">"ggplot2"</span>,</span>
<span>        title <span class="op">=</span> <span class="st">"my title"</span>,</span>
<span>        line <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="st">"red"</span>, size <span class="op">=</span> <span class="fl">1</span><span class="op">)</span>,</span>
<span>        point <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"plum"</span>, <span class="st">"tomato"</span>, <span class="st">"springgreen"</span><span class="op">)</span>, shape <span class="op">=</span> <span class="fl">3</span><span class="op">:</span><span class="fl">5</span>, size <span class="op">=</span> <span class="fl">2</span><span class="op">)</span>,</span>
<span>        icer <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"red"</span>, <span class="st">"orange"</span>, <span class="st">"black"</span><span class="op">)</span>, size <span class="op">=</span> <span class="fl">5</span><span class="op">)</span>,</span>
<span>        contour <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>size <span class="op">=</span> <span class="fl">2</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-15-1.png" width="576"></p>
<div class="sourceCode" id="cb24"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>,</span>
<span>        graph <span class="op">=</span> <span class="st">"base"</span>,</span>
<span>        title <span class="op">=</span> <span class="st">"my title"</span>,</span>
<span>        line <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="st">"red"</span>, size <span class="op">=</span> <span class="fl">1</span><span class="op">)</span>,</span>
<span>        point <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"plum"</span>, <span class="st">"tomato"</span>, <span class="st">"springgreen"</span><span class="op">)</span>, shape <span class="op">=</span> <span class="fl">3</span><span class="op">:</span><span class="fl">5</span>, size <span class="op">=</span> <span class="fl">2</span><span class="op">)</span>,</span>
<span>        icer <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"red"</span>, <span class="st">"orange"</span>, <span class="st">"black"</span><span class="op">)</span>, size <span class="op">=</span> <span class="fl">5</span><span class="op">)</span>,</span>
<span>        contour <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>size <span class="op">=</span> <span class="fl">4</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-16-1.png" width="576"></p>
<p>Again, this applies to the <code><a href="../reference/contour2.html">contour2()</a></code> version of contour
plot too.</p>
<div class="sourceCode" id="cb25"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour2.html">contour2</a></span><span class="op">(</span><span class="va">he</span>, wtp <span class="op">=</span> <span class="fl">250</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-17-1.png" width="576"></p>
<div class="sourceCode" id="cb26"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour2.html">contour2</a></span><span class="op">(</span><span class="va">he</span>, wtp <span class="op">=</span> <span class="fl">250</span>, graph <span class="op">=</span> <span class="st">"ggplot2"</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-17-2.png" width="576"></p>
<p>The styling of the plot for multiple comparisons can specifically
change the colour and point type for each comparison.</p>
<div class="sourceCode" id="cb27"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour2.html">contour2</a></span><span class="op">(</span><span class="va">he</span>, wtp <span class="op">=</span> <span class="fl">250</span>,</span>
<span>         graph <span class="op">=</span> <span class="st">"ggplot2"</span>,</span>
<span>         title <span class="op">=</span> <span class="st">"my title"</span>,</span>
<span>         line <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="st">"red"</span>, size <span class="op">=</span> <span class="fl">1</span><span class="op">)</span>,</span>
<span>         point <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"plum"</span>, <span class="st">"tomato"</span>, <span class="st">"springgreen"</span><span class="op">)</span>, shape <span class="op">=</span> <span class="fl">3</span><span class="op">:</span><span class="fl">5</span>, size <span class="op">=</span> <span class="fl">2</span><span class="op">)</span>,</span>
<span>         icer <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"red"</span>, <span class="st">"orange"</span>, <span class="st">"black"</span><span class="op">)</span>, size <span class="op">=</span> <span class="fl">5</span><span class="op">)</span>,</span>
<span>         contour <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>size <span class="op">=</span> <span class="fl">2</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-18-1.png" width="576"></p>
<div class="sourceCode" id="cb28"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour2.html">contour2</a></span><span class="op">(</span><span class="va">he</span>, wtp <span class="op">=</span> <span class="fl">250</span>,</span>
<span>         graph <span class="op">=</span> <span class="st">"base"</span>,</span>
<span>         title <span class="op">=</span> <span class="st">"my title"</span>,</span>
<span>         line <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="st">"red"</span>, size <span class="op">=</span> <span class="fl">1</span><span class="op">)</span>,</span>
<span>         point <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"plum"</span>, <span class="st">"tomato"</span>, <span class="st">"springgreen"</span><span class="op">)</span>, shape <span class="op">=</span> <span class="fl">3</span><span class="op">:</span><span class="fl">5</span>, size <span class="op">=</span> <span class="fl">2</span><span class="op">)</span>,</span>
<span>         icer <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>color <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"red"</span>, <span class="st">"orange"</span>, <span class="st">"black"</span><span class="op">)</span>, size <span class="op">=</span> <span class="fl">5</span><span class="op">)</span>,</span>
<span>         contour <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>size <span class="op">=</span> <span class="fl">4</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-19-1.png" width="576"></p>
<p>Reposition legend.</p>
<div class="sourceCode" id="cb29"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, pos <span class="op">=</span> <span class="cn">FALSE</span><span class="op">)</span>    <span class="co"># bottom right</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-20-1.png" width="576"></p>
<div class="sourceCode" id="cb30"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, pos <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">0</span>, <span class="fl">0</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-20-2.png" width="576"></p>
<div class="sourceCode" id="cb31"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, pos <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">0</span>, <span class="fl">1</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-20-3.png" width="576"></p>
<div class="sourceCode" id="cb32"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, pos <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span>, <span class="fl">0</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-20-4.png" width="576"></p>
<div class="sourceCode" id="cb33"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="../reference/contour.html">contour</a></span><span class="op">(</span><span class="va">he</span>, pos <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span>, <span class="fl">1</span><span class="op">)</span><span class="op">)</span></span></code></pre></div>
<p><img src="contour_files/figure-html/unnamed-chunk-20-5.png" width="576"></p>
<!-- ```{r echo=FALSE} -->
<!-- # create output docs -->
<!-- # rmarkdown::render(input = "vignettes/ceac.Rmd", output_format = "pdf_document", output_dir = "vignettes") -->
<!-- # rmarkdown::render(input = "vignettes/ceac.Rmd", output_format = "html_document", output_dir = "vignettes") -->
<!-- ``` -->
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