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<!DOCTYPE html>
<html>
<head>
<title>Barcode visualizations using R</title>
<meta charset="utf-8">
<meta name="description" content="Barcode visualizations using R">
<meta name="author" content="Markus Skyttner">
<meta name="generator" content="slidify" />
<meta name="apple-mobile-web-app-capable" content="yes">
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media="only screen and (max-device-width: 480px)" >
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<script>window.jQuery || document.write('<script src="libraries/widgets/quiz/js/jquery.js"><\/script>')</script>
<script data-main="libraries/frameworks/io2012/js/slides"
src="libraries/frameworks/io2012/js/require-1.0.8.min.js">
</script>
</head>
<body style="opacity: 0">
<slides class="layout-widescreen">
<!-- LOGO SLIDE -->
<slide class="title-slide segue nobackground">
<hgroup class="auto-fadein">
<h1>Barcode visualizations using R</h1>
<h2>Coloring ATCG-sequences in knitr/slidify reports</h2>
<p>Markus Skyttner<br/></p>
</hgroup>
<article></article>
</slide>
<!-- SLIDES -->
<slide class="" id="slide-1" style="background:;">
<hgroup>
<h2>Reference samples</h2>
</hgroup>
<article data-timings="">
<p>Samples kept at the Swedish Museum for Natural History of the <a href="http://naturarv.se/?param=dnakey&catalogNumber=20106015">European Roller</a> using Cat. id. NRM 20106015 - depicted in the figure to the left - and the <a href="http://naturarv.se/?param=dnakey&catalogNumber=20046331">Eurasian Woodcock</a> using Cat. id. NRM 20046331 - the figure to the right - from which some DNA data has been sequenced. </p>
<table><thead>
<tr>
<th>European Roller</th>
<th>Eurasian Woodcock</th>
</tr>
</thead><tbody>
<tr>
<td><img src="blue-bird-small.png" alt="alt text" title="Reference sample of European Roller"></td>
<td><img src="brown-bird-small.png" alt="alt text" title="Reference sample of European Woodcock"></td>
</tr>
<tr>
<td><strong>This European Roller flew astray, it is from Ramsberg, north of Lindesberg.</strong></td>
<td><strong>This Eurasian Woodcock originates from the Fiby lake outside Uppsala.</strong></td>
</tr>
</tbody></table>
</article>
<!-- Presenter Notes -->
</slide>
<slide class="" id="slide-2" style="background:;">
<hgroup>
<h2>The data behind a DNA barcode visualization</h2>
</hgroup>
<article data-timings="">
<p>DNA sequence data from a European Roller can be expressed like this in text format:</p>
<pre><code>CTAATTTTTGGGGCCTGAGCGGGCATGGTTGGAACCGCCCTCAGCCTGCTCATTCGCGCAGAA
CTCGGTCAACCAGGAACCCTACTAGGAGACGACCAGATCTACAACGTAATCGTCACTGCCCAT
GCCTTCGTAATAATCTTCTTTATAGTCATACCAATCATAATCGGGGGCTTTGGAAACTGACTA
GTCCCCCTTATAATCGGCGCCCCAGACATAGCGTTCCCCCGTATAAATAACATAAGCTTCTGA
CTACTCCCCCCATCCTTCCTTCTCCTACTAGCCTCCTCCACCGTAGAAGCTGGTGCTGGTACA
GGGTGAACAGTCTACCCCCCTCTAGCTGGTAATCTGGCCCACGCCGGAGCTTCTGTAGACCTA
GCCATCTTCTCCCTACACCTCGCTGGAGTCTCATCAATCCTAGGTGCAATCAACTTCATCACT
ACTGCCATTAACATAAAGCCCCCGGCCCTATCTCAATACCAAACCCCCCTATTCGTATGATCC
GTACTAATCACAGCCGTCCTACTATTACTTTCACTGCCCGTCCTCGCTGCCGGCATTACAATG
CTCCTCACAGACCGAAACCTAAACACCACATTCTTTGACCCAGCCGGAGGAGGAGACCCAGTC
CTATACCAACACCTATTC
</code></pre>
<p>The problem with this presentation format is that humans are very slow at processing this type of data - we use sequential processing which heavily taxes our working memory, when we could use <strong>pre-attentive processing</strong> to speed up our understanding of this abstract data.</p>
</article>
<!-- Presenter Notes -->
</slide>
<slide class="" id="slide-3" style="background:;">
<hgroup>
<h2>Traditional barcode visualization</h2>
</hgroup>
<article data-timings="">
<p>Traditionally, DNA sequenced data is therefore displayed in a colorful format using thin bars of four different colors representing the A, C, T and G symbols in the DNA sequence data. That way, an illusive similarity with product barcodes is constructed. </p>
<p>Such a classic traditional barcode depiction looks like this for these two sample sequences:</p>
<p><img src="assets/fig/unnamed-chunk-21.png" alt="plot of chunk unnamed-chunk-2"> <img src="assets/fig/unnamed-chunk-22.png" alt="plot of chunk unnamed-chunk-2"> </p>
<p>This presentation format can compress a lot of data into one line, provided there are enough pixels available. However, it sacrifices clear display of individual symbols, because bars are so thin that they can barely be distinguished. And what happens when the sequence length is greater than available pixel width?</p>
<p>Can you think of alternative ways to display the same data that fixes some of the problems above?</p>
</article>
<!-- Presenter Notes -->
</slide>
<slide class="" id="slide-4" style="background:;">
<article data-timings="">
<pre style="font-family: monospace;">
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style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><br/><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><br/><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><br/><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><br/><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><br/><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><br/><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span>
</pre>
<p><span title="a" style="color:#fb9a99;">█</span> (red) = A<br>
<span title="c" style="color:#a6cee3;">█</span> (blue) = C<br>
<span title="t" style="color:#b2df8a;">█</span> (green) = T<br>
<span title="g" style="color:#fdbf6f;">█</span> (yellow) = G<br>
<span title="unknown" style="color:#252525;">█</span> (unknown) = N </p>
</article>
<!-- Presenter Notes -->
</slide>
<slide class="" id="slide-5" style="background:;">
<hgroup>
<h2>Looking at 3rd position symbols only</h2>
</hgroup>
<article data-timings="">
<p>This is a classic barcode illustration over symbols in the 3rd position only. It so happens that a lot of differences between sequences happen in this 3rd position. </p>
<p>The illustration below emphasizes the big picture overview but it makes it hard to spot exactly where indvidual differences occur: </p>
<p><img src="assets/fig/unnamed-chunk-31.png" alt="plot of chunk unnamed-chunk-3"> <img src="assets/fig/unnamed-chunk-32.png" alt="plot of chunk unnamed-chunk-3"> </p>
</article>
<!-- Presenter Notes -->
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<hgroup>
<h3>European Roller:</h3>
</hgroup>
<article data-timings="">
<pre style="font-family: monospace;">
<span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><br/><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><br/><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="G" style="color:#ff7f00;">█</span><br/><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span>
</pre>
<h3>Eurasian woodcock:</h3>
<pre style="font-family: monospace;">
<span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><br/><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><br/><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><br/><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span>
</pre>
<p><span title="A" style="color:#e31a1c;">█</span> (red) = A<br>
<span title="C" style="color:#1f78b4;">█</span> (blue) = C<br>
<span title="T" style="color:#33a02c;">█</span> (green) = T<br>
<span title="G" style="color:#ff7f00;">█</span> (yellow) = G </p>
<p>As you can see, when we use a multi-line display it is hard to spot the differences because positions are still not easily aligned so comparisons become slow and cognitively difficult to make. How can we support that task in a better way? </p>
</article>
<!-- Presenter Notes -->
</slide>
<slide class="" id="slide-7" style="background:;">
<hgroup>
<h2>Using a pairwise multi-line row-wrapped display</h2>
</hgroup>
<article data-timings="">
<p>Light gray markings are used to accentuate pairwise differences pre-attentively: </p>
<pre style="font-family: monospace;">
<span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><br/><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><br/><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><br/><br/><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="G" style="color:#ff7f00;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><br/><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="match" style="color:#636363;">█</span><span title="match" style="color:#636363;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><span title="no match" style="color:#ffffff;">█</span><br/><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><br/><br/><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" 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style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="A" style="color:#e31a1c;">█</span><span title="T" style="color:#33a02c;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="C" style="color:#1f78b4;">█</span>
</pre>
<p>With this technique no heavy cognitive hit is required to spot where the differences occur.</p>
</article>
<!-- Presenter Notes -->
</slide>
<slide class="" id="slide-8" style="background:;">
<hgroup>
<h2>Non-position-3-symbols</h2>
</hgroup>
<article data-timings="">
<p>Shown in the traditional way: </p>
<p><img src="assets/fig/unnamed-chunk-41.png" alt="plot of chunk unnamed-chunk-4"> <img src="assets/fig/unnamed-chunk-42.png" alt="plot of chunk unnamed-chunk-4"> </p>
<p>In this display we see that the barcodes are quite similar. </p>
<p>Maybe we even wonder if there are any differences at all there? But we cannot say, or can we?</p>
<p>As a side remark on colors: Colors used for the traditional barcode display are not well chosen. It is better to use perceptually friendly colors - and to avoid "RGB corners". Look at Color Brewer [<a href="http://www.colorbrewer2.org">http://www.colorbrewer2.org</a>] for guidance!</p>
</article>
<!-- Presenter Notes -->
</slide>
<slide class="" id="slide-9" style="background:;">
<hgroup>
<h2>Non-position-3 data</h2>
</hgroup>
<article data-timings="">
<p>Displayed as separate color-coded row-wrapped multi-line paragraphs</p>
<pre style="font-family: monospace;">
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</pre>
<pre style="font-family: monospace;">
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</pre>
<p>Still quite impossible to see whether there are any differences, right?</p>
</article>
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style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="C" style="color:#1f78b4;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="T" style="color:#33a02c;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><br/><span title="no match" 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style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="T" style="color:#33a02c;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="g" style="color:#fdbf6f;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="a" style="color:#fb9a99;">█</span><span title="c" style="color:#a6cee3;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span><span title="t" style="color:#b2df8a;">█</span>
</pre>
<p>Now we can see where the differences are!</p>
</article>
<!-- Presenter Notes -->
</slide>
<slide class="" id="slide-11" style="background:;">
<hgroup>
<h2>Pos3data - to mute similarities or differences?</h2>
</hgroup>
<article data-timings="">
<pre style="font-family: monospace;">
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</pre>
<p>However, as you can see in this example, this technique using muting can be a little bit confusing when the foreground and the background are more or less equally represented - muting works less well in that case and color pairs can be harder to distinguish.</p>
</article>
<!-- Presenter Notes -->
</slide>
<slide class="" id="slide-12" style="background:;">
<hgroup>
<h2>Numerical similarity measures</h2>
</hgroup>
<article data-timings="">
<p>The Levenshtein-distance (the "edit distance" measuring least number of edit operations necessary to go from one string to another) is 99.
For symbols in the third position only, the same measure is 89.
The measure for remaining symbols (ie in non-3rd-positions) is 7.</p>
<h3>Similarity measure</h3>
<p>The Levenshtein similarity measure can be calculated and is defined on the interval [0,1] where 0 indicates the highest level of dissimilarity and consequently <strong>1 denotes highest possible similarity</strong> between two strings of symbols.</p>
<p>For symbols in the 3rd position, we get the measure 0.588.
For symbols in other positions, we get a significantly higher similarity mesaure: 0.9838</p>
</article>
<!-- Presenter Notes -->
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