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software.html
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<!DOCTYPE html>
<html xmlns="http://www.w3.org/1999/xhtml">
<head>
<meta charset="utf-8" />
<meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
<meta name="generator" content="pandoc" />
<title>Software</title>
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<h1 class="title toc-ignore"><span style="color:#3c9abc"><b>Software</b></span></h1>
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<div id="pcadapt" class="section level3">
<h3><a href="https://cran.r-project.org/web/packages/pcadapt/index.html">pcadapt</a></h3>
<p>Methods to detect genetic markers involved in biological adaptation. ‘pcadapt’ provides statistical tools for outlier detection based on Principal Component Analysis. Implements the method described in (Luu, 2016) <a href="doi:10.1111/1755-0998.12592" class="uri">doi:10.1111/1755-0998.12592</a>.</p>
<iframe src="https://keurcien.shinyapps.io/app-pcadapt?showcase=0" width="100%" height="600px">
</iframe>
<p><em>NB: as it is hosted thanks to the shinyapps.io free plan, the online app will only work with small datasets (e.g 10MB). To use it with larger data, install the GitHub version of the package.</em></p>
<div id="tutorials" class="section level4">
<h4><span style="color:#3c9abc"><b>Tutorials</b></span></h4>
<ul>
<li><p><a href="https://bcm-uga.github.io/pcadapt/">bcm-uga.github.io</a></p></li>
<li><p><a href="https://cran.r-project.org/web/packages/pcadapt/vignettes/pcadapt.html">CRAN vignette</a></p></li>
<li><p><a href="http://popgen.nescent.org/2016-01-26-SNP-selection.html#section-2-pcadapt">popgen.nescent.org</a></p></li>
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