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articles/AMR.html
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@ -39,7 +39,7 @@
<a class="navbar-brand me-2" href="../index.html">AMR (for R)</a>
<small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">2.1.1.9010</small>
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@ -39,7 +39,7 @@
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articles/MDR.html
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@ -39,7 +39,7 @@
<a class="navbar-brand me-2" href="../index.html">AMR (for R)</a>
<small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">2.1.1.9010</small>
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@ -402,19 +402,19 @@ names or codes, this would have worked exactly the same way:</p>
<div class="sourceCode" id="cb8"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span><span class="fu"><a href="https://rdrr.io/r/utils/head.html" class="external-link">head</a></span><span class="op">(</span><span class="va">my_TB_data</span><span class="op">)</span></span>
<span><span class="co">#&gt; rifampicin isoniazid gatifloxacin ethambutol pyrazinamide moxifloxacin</span></span>
<span><span class="co">#&gt; 1 I I R R R R</span></span>
<span><span class="co">#&gt; 2 S I S S S S</span></span>
<span><span class="co">#&gt; 3 I S S S R R</span></span>
<span><span class="co">#&gt; 4 I R R S S R</span></span>
<span><span class="co">#&gt; 5 R R R R S I</span></span>
<span><span class="co">#&gt; 6 S I R R S I</span></span>
<span><span class="co">#&gt; 1 S R I I S I</span></span>
<span><span class="co">#&gt; 2 I I S S S S</span></span>
<span><span class="co">#&gt; 3 S I S R I R</span></span>
<span><span class="co">#&gt; 4 S R I S I R</span></span>
<span><span class="co">#&gt; 5 S R R I R S</span></span>
<span><span class="co">#&gt; 6 S R R S S S</span></span>
<span><span class="co">#&gt; kanamycin</span></span>
<span><span class="co">#&gt; 1 S</span></span>
<span><span class="co">#&gt; 2 R</span></span>
<span><span class="co">#&gt; 3 R</span></span>
<span><span class="co">#&gt; 4 S</span></span>
<span><span class="co">#&gt; 5 R</span></span>
<span><span class="co">#&gt; 6 S</span></span></code></pre></div>
<span><span class="co">#&gt; 1 R</span></span>
<span><span class="co">#&gt; 2 I</span></span>
<span><span class="co">#&gt; 3 I</span></span>
<span><span class="co">#&gt; 4 I</span></span>
<span><span class="co">#&gt; 5 S</span></span>
<span><span class="co">#&gt; 6 R</span></span></code></pre></div>
<p>We can now add the interpretation of MDR-TB to our data set. You can
use:</p>
<div class="sourceCode" id="cb9"><pre class="downlit sourceCode r">
@ -455,40 +455,40 @@ Unique: 5</p>
<tr class="odd">
<td align="left">1</td>
<td align="left">Mono-resistant</td>
<td align="right">3177</td>
<td align="right">63.54%</td>
<td align="right">3177</td>
<td align="right">63.54%</td>
<td align="right">3255</td>
<td align="right">65.10%</td>
<td align="right">3255</td>
<td align="right">65.10%</td>
</tr>
<tr class="even">
<td align="left">2</td>
<td align="left">Negative</td>
<td align="right">1019</td>
<td align="right">20.38%</td>
<td align="right">4196</td>
<td align="right">83.92%</td>
<td align="right">961</td>
<td align="right">19.22%</td>
<td align="right">4216</td>
<td align="right">84.32%</td>
</tr>
<tr class="odd">
<td align="left">3</td>
<td align="left">Multi-drug-resistant</td>
<td align="right">479</td>
<td align="right">9.58%</td>
<td align="right">4675</td>
<td align="right">93.50%</td>
<td align="right">454</td>
<td align="right">9.08%</td>
<td align="right">4670</td>
<td align="right">93.40%</td>
</tr>
<tr class="even">
<td align="left">4</td>
<td align="left">Poly-resistant</td>
<td align="right">201</td>
<td align="right">4.02%</td>
<td align="right">4876</td>
<td align="right">97.52%</td>
<td align="right">245</td>
<td align="right">4.90%</td>
<td align="right">4915</td>
<td align="right">98.30%</td>
</tr>
<tr class="odd">
<td align="left">5</td>
<td align="left">Extensively drug-resistant</td>
<td align="right">124</td>
<td align="right">2.48%</td>
<td align="right">85</td>
<td align="right">1.70%</td>
<td align="right">5000</td>
<td align="right">100.00%</td>
</tr>

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articles/PCA.html
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@ -39,7 +39,7 @@
<a class="navbar-brand me-2" href="../index.html">AMR (for R)</a>
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@ -39,7 +39,7 @@
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@ -39,7 +39,7 @@
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@ -10,7 +10,7 @@
<a class="navbar-brand me-2" href="../index.html">AMR (for R)</a>
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articles/other_pkg.html
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@ -39,7 +39,7 @@
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articles/resistance_predict.html
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articles/welcome_to_AMR.html
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@ -39,7 +39,7 @@
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