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Commit 3d8b3f7f authored by Armin Rauschenberger's avatar Armin Rauschenberger
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<h1 class="title toc-ignore">Multivariate Elastic Net</h1>
<div id="installation" class="section level2">
<h2>Installation</h2>
<p>Install the current release from <a href="https://CRAN.R-project.org/package=mixnet">CRAN</a>:</p>
<div class="sourceCode" id="cb1"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb1-1" title="1"><span class="kw">install.packages</span>(<span class="st">&quot;mixnet&quot;</span>)</a></code></pre></div>
<p>or the latest development version from <a href="https://github.com/rauschenberger/mixnet">GitHub</a>:</p>
<div class="sourceCode" id="cb2"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb2-1" title="1"><span class="co">#install.packages(&quot;devtools&quot;)</span></a>
<a class="sourceLine" id="cb2-2" title="2">devtools<span class="op">::</span><span class="kw">install_github</span>(<span class="st">&quot;rauschenberger/mixnet&quot;</span>)</a></code></pre></div>
<div class="sourceCode" id="cb3"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb3-1" title="1"><span class="co">#install.packages(&quot;plsgenomics&quot;)</span></a>
<a class="sourceLine" id="cb3-2" title="2"><span class="kw">data</span>(Ecoli,<span class="dt">package=</span><span class="st">&quot;plsgenomics&quot;</span>)</a>
<a class="sourceLine" id="cb3-3" title="3">X &lt;-<span class="st"> </span>Ecoli<span class="op">$</span>CONNECdata</a>
<a class="sourceLine" id="cb3-4" title="4">Y &lt;-<span class="st"> </span>Ecoli<span class="op">$</span>GEdata</a>
<a class="sourceLine" id="cb3-5" title="5">loss &lt;-<span class="st"> </span>mixnet<span class="op">:::</span><span class="kw">cv.mixnet</span>(<span class="dt">Y=</span>Y,<span class="dt">X=</span>X)</a></code></pre></div>
<div class="sourceCode" id="cb4"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb4-1" title="1"><span class="co">#install.packages(&quot;BiocManager&quot;)</span></a>
<a class="sourceLine" id="cb4-2" title="2"><span class="co">#BiocManager::install(&quot;mixOmics&quot;)</span></a>
<a class="sourceLine" id="cb4-3" title="3"><span class="kw">data</span>(liver.toxicity,<span class="dt">package=</span><span class="st">&quot;mixOmics&quot;</span>)</a>
<a class="sourceLine" id="cb4-4" title="4">X &lt;-<span class="st"> </span>liver.toxicity<span class="op">$</span>gene</a>
<a class="sourceLine" id="cb4-5" title="5">Y &lt;-<span class="st"> </span>liver.toxicity<span class="op">$</span>clinic</a>
<a class="sourceLine" id="cb4-6" title="6">Y<span class="op">$</span>Cholesterol.mg.dL. &lt;-<span class="st"> </span><span class="op">-</span>Y<span class="op">$</span>Cholesterol.mg.dL.</a>
<a class="sourceLine" id="cb4-7" title="7">loss &lt;-<span class="st"> </span>mixnet<span class="op">:::</span><span class="kw">cv.mixnet</span>(<span class="dt">Y=</span>Y,<span class="dt">X=</span>X)</a></code></pre></div>
<p>Armin Rauschenberger and Enrico Glaab (2019). “Multivariate elastic net regression through stacked generalisation”. <em>Manuscript in preparation.</em></p>
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