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(This article was first published on <strong><a href="http://www.r-graph-gallery.com/2017/01/18/the-genetic-map-comparator/"> Blog – The R graph Gallery</a></strong>, and kindly contributed to <a rel="nofollow" href="https://www.r-bloggers.com/">R-bloggers)</a> </div>
<p>The <a target="_blank" rel="nofollow" href="http://wp.me/p6CSAh-LH">Genetic Map Comparator</a> is an R Shiny application made to compare and characterize genetic maps. You can use it through the <a target="_blank" rel="nofollow" href="http://www.agap-sunshine.inra.fr/genmapcomp/">online version</a> and read the related publication in <a target="_blank" rel="nofollow" href="https://academic.oup.com/bioinformatics/article/2908431/The-Genetic-Map-Comparator-a-user-friendly">Bioinformatics</a>.</p>
<p><strong>The biological perspective</strong></p>
<p>A genetic map provides the position of genetic markers along chromosomes. Geneticists often have to visualize these maps and calculate their basic statistics (length, # of markers, gap size..). Multiple maps that share some markers have to be dealt with when several segregating populations are studied. These maps are compared to highlight their overall relative strengths and weaknesses (e.g. via marker distributions or map lengths), or local marker inconsistencies.</p>
<p>The <a target="_blank" rel="nofollow" href="http://wp.me/p6CSAh-LH">Genetic Map Comparator</a> is an effective user-friendly tool to complete these tasks. It is possible to upload your genetic maps and explore them using the various sheets accessible via links at the top of the window. The app provides example datasets, which makes it easy to understand its capacity in less than 2 minutes, so why not <a target="_blank" rel="nofollow" href="http://www.agap-sunshine.inra.fr/genmapcomp/">have a look</a>?</p>
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<p><strong>The Dataviz perspective<br>
</strong></p>
<p>This app highlights a few features of the power of shiny as a dataviz explorative tool:</p>
<ul>
<li>The insertion of <strong>interactive charts</strong> (mainly using plotly) is straightforward</li>
<li><strong>CSS</strong> can be applied, which gives a nice look to the app</li>
<li>It is <strong>easy to share</strong> the tool: in our case we installed it on our private shiny server, but the app is also usable from the <a target="_blank" rel="nofollow" href="https://github.com/holtzy/GenMap-Comparator">github repository</a>!</li>
<li>It is possible to <strong>load</strong> your files into the app, and <strong>export</strong> results really easily</li>
</ul>
<p>If you want to see how to use these features, the code is freely available on <a target="_blank" rel="nofollow" href="https://github.com/holtzy/GenMap-Comparator">github</a>.</p>
<p><strong>Example:</strong></p>
<p>Here is a screenshot of the main tabs of the app:</p>
<p><img sizes="(max-width: 764px) 100vw, 764px" class="wp-image-2959" src="https://i2.wp.com/www.r-graph-gallery.com/wp-content/uploads/2017/01/Figure1-1024x768.jpg?resize=456%2C342" data-recalc-dims="1"></p>
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<p><a title="Recommend this" target="_blank" rel="nofollow" href="http://www.r-graph-gallery.com/2017/01/18/the-genetic-map-comparator/#"><span>1</span> <span></span></a></p>
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<div>To <strong>leave a comment</strong> for the author, please follow the link and comment on their blog: <strong><a href="http://www.r-graph-gallery.com/2017/01/18/the-genetic-map-comparator/"> Blog – The R graph Gallery</a></strong>.</div>
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