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dendrogram.html
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dendrogram.html
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<!doctype html>
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<head>
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<h1>Dendrogram</h1>
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<p style="max-width: 700px; margin: auto">
A
<a href="https://www.data-to-viz.com/graph/dendrogram.html"
>dendrogram</a
>
(or tree diagram) is a network structure. It is constituted of a root
node that gives birth to several nodes connected by edges or branches.
The last nodes of the hierarchy are called leaves. Many options are
available to build one with R. This sections aims to lead you toward
the best strategy for your data.
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<div class="container">
<p class="mySeryTitle">Two types of dendrogram</p>
<hr />
<p>Dendrograms can be built from:</p>
<ul>
<li>
<a href="#hiera">Hierarchical dataset</a>: think about a CEO
managing team leads managing employees and so on.
</li>
<li>
<a href="#clust">Clustering result</a>: clustering divides a set of
individuals in group according to their similarity. Its result can
be visualized as a tree.
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<br /><br /><br /><br />
<div class="mySeryTitle" id="hiera">
Dendrogram from <code>hierarchical</code> data.
</div>
<hr />
<p>
The <code>ggraph</code> package is the best option to build a
dendrogram from hierarchical data with R. It is based on the grammar
of graphic and thus follows the same logic that <code>ggplot2</code>.
</p>
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href="334-basic-dendrogram-with-ggraph.html"
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<div class="portfolio-hover-content">
<p>Most basic dendrogram</p>
<hr />
<p class="explanation_portfolio">
Most basic usage of ggraph, applied on 2 types of input data
format.
</p>
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class="img-fluid imgOfPortfolio"
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<p>Dendrogram customization</p>
<hr />
<p class="explanation_portfolio">
Go further with ggraph: edge style, general layout, node
features, adding labels, and more.
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class="img-fluid imgOfPortfolio"
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href="339-circular-dendrogram-with-ggraph.html"
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<p>Customized circular dendrogram</p>
<hr />
<p class="explanation_portfolio">
Learn how to build a circular dendrogram with proper labels.
</p>
</div>
</div>
<img
class="img-fluid imgOfPortfolio"
src="img/graph/339-circular-dendrogram-with-ggraph.png"
alt=""
/>
</a>
</div>
</div>
<p>
The <code>collapsibletree</code> package is an htmlwidget: it
automatically builds collapsible interactive tree diagram. On the
chart below, <u>click a node</u> to reveal the next branch, and zoom
in/out if necessary.
</p>
<a
class="btn btn-secondary btn-md text-uppercase"
href="159-save-interactive-streamgraph-to-static-image-png.html"
>How to export to .png</a
>
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class="btn btn-secondary btn-md text-uppercase"
href="336-interactive-dendrogram-with-collapsibletree.html"
>Chart code</a
>
<br /><br />
<center>
<iframe
src="HtmlWidget/dendrogram_interactive.html"
height="700"
width="80%"
style="border: none"
></iframe>
</center>
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Dendrogram from <code>clustering</code> result.
</div>
<hr />
<p>
Hierarchical clustering is a common task in data science and can be
performed with the <code>hclust()</code> function in R. The following
examples will guide you through your process, showing how to prepare
the data, how to run the clustering and how to build an appropriate
chart to visualize its result.
</p>
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<p>Basic clustering process</p>
<hr />
<p class="explanation_portfolio">
Learn how to format your data, compute distance between
samples, run the clusterisation and visualize the result.
</p>
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class="img-fluid imgOfPortfolio"
src="img/graph/29-basic-dendrogram.png"
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<div class="portfolio-hover-content">
<p>Zoom / Select</p>
<hr />
<p class="explanation_portfolio">
Zoom on a specific part of the tree to study a particular
group more in detail.
</p>
</div>
</div>
<img
class="img-fluid imgOfPortfolio"
src="img/graph/29-basic-dendrogram2.png"
alt=""
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<p>Color and legend</p>
<hr />
<p class="explanation_portfolio">
Customize color and legend of the dendrogram.
</p>
</div>
</div>
<img
class="img-fluid imgOfPortfolio"
src="img/graph/31-custom-colors-in-dendrogram.png"
alt=""
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</a>
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<br /><br /><br /><br />
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More customization with <code>dendextend</code>.
</div>
<hr />
<p>
The <code>dendextend</code> package allows to go one step further in
term of dendrogram customization. Here is a set of examples showing
the main possibilities, like adding color bar on the bottom, drawing 2
trees face to face and more.
</p>
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<p>The set() function</p>
<hr />
<p class="explanation_portfolio">
An introduction to the set function that allows to customize
node and label features.
</p>
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<p>Horizontal</p>
<hr />
<p class="explanation_portfolio">
Flip the tree to get it horizontal, and use coloring to
highlight clusters.
</p>
</div>
</div>
<img
class="img-fluid imgOfPortfolio"
src="img/graph/340-custom-your-dendrogram-with-dendextend2.png"
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<p>Highlight a group</p>
<hr />
<p class="explanation_portfolio">
Highlight a specific group with a rectangle on top.
</p>
</div>
</div>
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class="img-fluid imgOfPortfolio"
src="img/graph/340-custom-your-dendrogram-with-dendextend3.png"
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<p>Bottom bar</p>
<hr />
<p class="explanation_portfolio">
Add a colored bar on the bottom of the tree to check an
expected distribution.
</p>
</div>
</div>
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<p>Face to face</p>
<hr />
<p class="explanation_portfolio">
Put 2 dendrogram face to face to compare their clustering
result.
</p>
</div>
</div>
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(t.src =
"https://cafemedia-com.videoplayerhub.com/galleryplayer.js"),
e.head.appendChild(t);
}
function a() {
var t = e.cookie.match("(^|[^;]+)\s*__adblocker\s*=\s*([^;]+)");
return t && t.pop();
}
function c() {
clearInterval(n);
}
return {
init: function () {
var e;
"true" === (t = a())
? r()
: ((e = 0),
(n = setInterval(function () {
(100 !== e && "false" !== t) || c(),
"true" === t && (r(), c()),
(t = a()),
e++;
}, 50)));
},
};
})().init();
})();
</script>
<!-- AdThrive Footer Code End -->
<footer class="bg-light" id="myFooter"></footer>
<!-- THIS ALLOWS TO INSERT THE FOOTER THAT IS STORED IN A FOOTER.HTML FILE-->
<script>
$(function () {
$("#myFooter").load("html_chunk/footer.html");
});
</script>
<!-- ============================ -->
<!-- =============== JAVASCRIPT SECTION =============== -->
<!-- Bootstrap core JavaScript -->
<script src="vendor/bootstrap/js/bootstrap.bundle.min.js"></script>
<!-- Plugin JavaScript -->
<script src="vendor/jquery-easing/jquery.easing.min.js"></script>
<!-- Custom scripts for this template -->
<script src="js/agency.min.js"></script>
<!--============================== -->
</body>
</html>