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<center><h1>Available circular chart types with circlize</h1></center>
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<center><p style="max-width: 600px; margin-top: 40px">The <code>circlize</code> package allows to build <a href="chord-diagram.html">circular charts</a> with R. Several chart types are offered: bar, scatter, line, abline and more. This post shows how to build them.</p></center>
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<h1 id="circular-scatterplot">Circular Scatterplot</h1>
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<p>Circular scatterplot has already been extensively described in chart <a href="224-basic-circular-plot.html">#224</a> and <a href="225-circular-plot-custom-a-track.html">#225</a>.</p>
<p>Here is a reminder:</p>
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<p><img src="226-plot-types-for-circular-plot_files/figure-html/thecode-1.png" width="100%" /></p>
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<div class="sourceCode" id="cb1"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb1-1" data-line-number="1"><span class="co"># Upload library</span></a>
<a class="sourceLine" id="cb1-2" data-line-number="2"><span class="kw">library</span>(circlize)</a>
<a class="sourceLine" id="cb1-3" data-line-number="3"><span class="kw">circos.par</span>(<span class="st">"track.height"</span> =<span class="st"> </span><span class="fl">0.4</span>)</a>
<a class="sourceLine" id="cb1-4" data-line-number="4"></a>
<a class="sourceLine" id="cb1-5" data-line-number="5"><span class="co"># Create data</span></a>
<a class="sourceLine" id="cb1-6" data-line-number="6">data =<span class="st"> </span><span class="kw">data.frame</span>(</a>
<a class="sourceLine" id="cb1-7" data-line-number="7"> <span class="dt">factor =</span> <span class="kw">sample</span>(letters[<span class="dv">1</span><span class="op">:</span><span class="dv">8</span>], <span class="dv">1000</span>, <span class="dt">replace =</span> <span class="ot">TRUE</span>),</a>
<a class="sourceLine" id="cb1-8" data-line-number="8"> <span class="dt">x =</span> <span class="kw">rnorm</span>(<span class="dv">1000</span>),</a>
<a class="sourceLine" id="cb1-9" data-line-number="9"> <span class="dt">y =</span> <span class="kw">runif</span>(<span class="dv">1000</span>)</a>
<a class="sourceLine" id="cb1-10" data-line-number="10"> )</a>
<a class="sourceLine" id="cb1-11" data-line-number="11"></a>
<a class="sourceLine" id="cb1-12" data-line-number="12"><span class="co"># Step1: Initialise the chart giving factor and x-axis.</span></a>
<a class="sourceLine" id="cb1-13" data-line-number="13"><span class="kw">circos.initialize</span>( <span class="dt">factors=</span>data<span class="op">$</span>factor, <span class="dt">x=</span>data<span class="op">$</span>x )</a>
<a class="sourceLine" id="cb1-14" data-line-number="14"></a>
<a class="sourceLine" id="cb1-15" data-line-number="15"><span class="co"># Step 2: Build the regions.</span></a>
<a class="sourceLine" id="cb1-16" data-line-number="16"><span class="kw">circos.trackPlotRegion</span>(<span class="dt">factors =</span> data<span class="op">$</span>factor, <span class="dt">y =</span> data<span class="op">$</span>y, <span class="dt">panel.fun =</span> <span class="cf">function</span>(x, y) {</a>
<a class="sourceLine" id="cb1-17" data-line-number="17"> <span class="kw">circos.axis</span>()</a>
<a class="sourceLine" id="cb1-18" data-line-number="18"> })</a>
<a class="sourceLine" id="cb1-19" data-line-number="19"></a>
<a class="sourceLine" id="cb1-20" data-line-number="20"><span class="co"># Step 3: Add points</span></a>
<a class="sourceLine" id="cb1-21" data-line-number="21"><span class="kw">circos.trackPoints</span>(data<span class="op">$</span>factor, data<span class="op">$</span>x, data<span class="op">$</span>y, <span class="dt">col=</span><span class="st">"#69b3a2"</span>)</a></code></pre></div>
<h1 id="circular-line-chart">Circular Line chart</h1>
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<div class="col-md-6 col-sm-12 align-self-center">
<p>It is possible to switch to line chart using the <code>circos.trackLines()</code> function. Visit the <a href="line-plot.html">line chart</a> section of the gallery to learn how to customize that kind of chart.</p>
</div>
<div class="col-md-6 col-sm-12">
<p><img src="226-plot-types-for-circular-plot_files/figure-html/thecode2-1.png" width="100%" /></p>
</div>
</div>
<div class="sourceCode" id="cb2"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb2-1" data-line-number="1"><span class="co"># Upload library</span></a>
<a class="sourceLine" id="cb2-2" data-line-number="2"><span class="kw">library</span>(circlize)</a>
<a class="sourceLine" id="cb2-3" data-line-number="3"><span class="kw">circos.par</span>(<span class="st">"track.height"</span> =<span class="st"> </span><span class="fl">0.4</span>)</a>
<a class="sourceLine" id="cb2-4" data-line-number="4"></a>
<a class="sourceLine" id="cb2-5" data-line-number="5"><span class="co"># Create data</span></a>
<a class="sourceLine" id="cb2-6" data-line-number="6">data =<span class="st"> </span><span class="kw">data.frame</span>(</a>
<a class="sourceLine" id="cb2-7" data-line-number="7"> <span class="dt">factor =</span> <span class="kw">sample</span>(letters[<span class="dv">1</span><span class="op">:</span><span class="dv">8</span>], <span class="dv">1000</span>, <span class="dt">replace =</span> <span class="ot">TRUE</span>),</a>
<a class="sourceLine" id="cb2-8" data-line-number="8"> <span class="dt">x =</span> <span class="kw">rnorm</span>(<span class="dv">1000</span>),</a>
<a class="sourceLine" id="cb2-9" data-line-number="9"> <span class="dt">y =</span> <span class="kw">runif</span>(<span class="dv">1000</span>)</a>
<a class="sourceLine" id="cb2-10" data-line-number="10"> )</a>
<a class="sourceLine" id="cb2-11" data-line-number="11"></a>
<a class="sourceLine" id="cb2-12" data-line-number="12"><span class="co"># Step1: Initialise the chart giving factor and x-axis.</span></a>
<a class="sourceLine" id="cb2-13" data-line-number="13"><span class="kw">circos.initialize</span>( <span class="dt">factors=</span>data<span class="op">$</span>factor, <span class="dt">x=</span>data<span class="op">$</span>x )</a>
<a class="sourceLine" id="cb2-14" data-line-number="14"></a>
<a class="sourceLine" id="cb2-15" data-line-number="15"><span class="co"># Step 2: Build the regions.</span></a>
<a class="sourceLine" id="cb2-16" data-line-number="16"><span class="kw">circos.trackPlotRegion</span>(<span class="dt">factors =</span> data<span class="op">$</span>factor, <span class="dt">y =</span> data<span class="op">$</span>y, <span class="dt">panel.fun =</span> <span class="cf">function</span>(x, y) {</a>
<a class="sourceLine" id="cb2-17" data-line-number="17"> <span class="kw">circos.axis</span>()</a>
<a class="sourceLine" id="cb2-18" data-line-number="18"> })</a>
<a class="sourceLine" id="cb2-19" data-line-number="19"></a>
<a class="sourceLine" id="cb2-20" data-line-number="20"><span class="co"># Step 3: Add points</span></a>
<a class="sourceLine" id="cb2-21" data-line-number="21"><span class="kw">circos.trackLines</span>(data<span class="op">$</span>factor, data<span class="op">$</span>x[<span class="kw">order</span>(data<span class="op">$</span>x)], data<span class="op">$</span>y[<span class="kw">order</span>(data<span class="op">$</span>x)], <span class="dt">col =</span> <span class="kw">rgb</span>(<span class="fl">0.1</span>,<span class="fl">0.5</span>,<span class="fl">0.8</span>,<span class="fl">0.3</span>), <span class="dt">lwd=</span><span class="dv">2</span>)</a></code></pre></div>
<h1 id="vertical-ablines">Vertical ablines</h1>
<hr />
<div class="row">
<div class="col-md-6 col-sm-12 align-self-center">
<p>The <code>circos.trackLines()</code> function can also be used to display vertical ablines.</p>
</div>
<div class="col-md-6 col-sm-12">
<p><img src="226-plot-types-for-circular-plot_files/figure-html/thecode3-1.png" width="100%" /></p>
</div>
</div>
<div class="sourceCode" id="cb3"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb3-1" data-line-number="1"><span class="co"># Upload library</span></a>
<a class="sourceLine" id="cb3-2" data-line-number="2"><span class="kw">library</span>(circlize)</a>
<a class="sourceLine" id="cb3-3" data-line-number="3"><span class="kw">circos.par</span>(<span class="st">"track.height"</span> =<span class="st"> </span><span class="fl">0.4</span>)</a>
<a class="sourceLine" id="cb3-4" data-line-number="4"></a>
<a class="sourceLine" id="cb3-5" data-line-number="5"><span class="co"># Create data</span></a>
<a class="sourceLine" id="cb3-6" data-line-number="6">data =<span class="st"> </span><span class="kw">data.frame</span>(</a>
<a class="sourceLine" id="cb3-7" data-line-number="7"> <span class="dt">factor =</span> <span class="kw">sample</span>(letters[<span class="dv">1</span><span class="op">:</span><span class="dv">8</span>], <span class="dv">1000</span>, <span class="dt">replace =</span> <span class="ot">TRUE</span>),</a>
<a class="sourceLine" id="cb3-8" data-line-number="8"> <span class="dt">x =</span> <span class="kw">rnorm</span>(<span class="dv">1000</span>),</a>
<a class="sourceLine" id="cb3-9" data-line-number="9"> <span class="dt">y =</span> <span class="kw">runif</span>(<span class="dv">1000</span>)</a>
<a class="sourceLine" id="cb3-10" data-line-number="10"> )</a>
<a class="sourceLine" id="cb3-11" data-line-number="11"></a>
<a class="sourceLine" id="cb3-12" data-line-number="12"><span class="co"># Step1: Initialise the chart giving factor and x-axis.</span></a>
<a class="sourceLine" id="cb3-13" data-line-number="13"><span class="kw">circos.initialize</span>( <span class="dt">factors=</span>data<span class="op">$</span>factor, <span class="dt">x=</span>data<span class="op">$</span>x )</a>
<a class="sourceLine" id="cb3-14" data-line-number="14"></a>
<a class="sourceLine" id="cb3-15" data-line-number="15"><span class="co"># Step 2: Build the regions.</span></a>
<a class="sourceLine" id="cb3-16" data-line-number="16"><span class="kw">circos.trackPlotRegion</span>(<span class="dt">factors =</span> data<span class="op">$</span>factor, <span class="dt">y =</span> data<span class="op">$</span>y, <span class="dt">panel.fun =</span> <span class="cf">function</span>(x, y) {</a>
<a class="sourceLine" id="cb3-17" data-line-number="17"> <span class="kw">circos.axis</span>()</a>
<a class="sourceLine" id="cb3-18" data-line-number="18"> })</a>
<a class="sourceLine" id="cb3-19" data-line-number="19"></a>
<a class="sourceLine" id="cb3-20" data-line-number="20"><span class="co"># Step 3: Add points</span></a>
<a class="sourceLine" id="cb3-21" data-line-number="21"><span class="kw">circos.trackLines</span>(data<span class="op">$</span>factor, data<span class="op">$</span>x[<span class="kw">order</span>(data<span class="op">$</span>x)], data<span class="op">$</span>y[<span class="kw">order</span>(data<span class="op">$</span>x)], <span class="dt">col =</span> <span class="kw">rgb</span>(<span class="fl">0.1</span>,<span class="fl">0.5</span>,<span class="fl">0.8</span>,<span class="fl">0.3</span>), <span class="dt">lwd=</span><span class="dv">2</span>, <span class="dt">type=</span><span class="st">"h"</span>)</a></code></pre></div>
<h1 id="circular-histogram">Circular histogram</h1>
<hr />
<div class="row">
<div class="col-md-6 col-sm-12 align-self-center">
<p>Note that each plot type must be coherent with what you specified in the <code>circos.trackPlotRegion</code> function.</p>
<p>You have to specify an Y axis for a scatterplot as seen before. But not for a histogram that is built with <code>circos.trackHist()</code>.</p>
</div>
<div class="col-md-6 col-sm-12">
<p><img src="226-plot-types-for-circular-plot_files/figure-html/thecode4-1.png" width="100%" /></p>
</div>
</div>
<div class="sourceCode" id="cb4"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb4-1" data-line-number="1"><span class="co"># Upload library</span></a>
<a class="sourceLine" id="cb4-2" data-line-number="2"><span class="kw">library</span>(circlize)</a>
<a class="sourceLine" id="cb4-3" data-line-number="3"><span class="kw">circos.par</span>(<span class="st">"track.height"</span> =<span class="st"> </span><span class="fl">0.4</span>)</a>
<a class="sourceLine" id="cb4-4" data-line-number="4"></a>
<a class="sourceLine" id="cb4-5" data-line-number="5"><span class="co"># Create data</span></a>
<a class="sourceLine" id="cb4-6" data-line-number="6">data =<span class="st"> </span><span class="kw">data.frame</span>(</a>
<a class="sourceLine" id="cb4-7" data-line-number="7"> <span class="dt">factor =</span> <span class="kw">sample</span>(letters[<span class="dv">1</span><span class="op">:</span><span class="dv">8</span>], <span class="dv">1000</span>, <span class="dt">replace =</span> <span class="ot">TRUE</span>),</a>
<a class="sourceLine" id="cb4-8" data-line-number="8"> <span class="dt">x =</span> <span class="kw">rnorm</span>(<span class="dv">1000</span>),</a>
<a class="sourceLine" id="cb4-9" data-line-number="9"> <span class="dt">y =</span> <span class="kw">runif</span>(<span class="dv">1000</span>)</a>
<a class="sourceLine" id="cb4-10" data-line-number="10"> )</a>
<a class="sourceLine" id="cb4-11" data-line-number="11"></a>
<a class="sourceLine" id="cb4-12" data-line-number="12"><span class="co"># Step1: Initialise the chart giving factor and x-axis.</span></a>
<a class="sourceLine" id="cb4-13" data-line-number="13"><span class="kw">circos.initialize</span>( <span class="dt">factors=</span>data<span class="op">$</span>factor, <span class="dt">x=</span>data<span class="op">$</span>x )</a>
<a class="sourceLine" id="cb4-14" data-line-number="14"></a>
<a class="sourceLine" id="cb4-15" data-line-number="15"><span class="kw">circos.trackHist</span>(data<span class="op">$</span>factor, data<span class="op">$</span>x, <span class="dt">bg.col =</span> <span class="st">"white"</span>, <span class="dt">col =</span> <span class="st">"#69b3a2"</span>)</a></code></pre></div>
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