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@ -38,7 +38,7 @@
<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="">2.0.0.9009</small>
<small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">2.0.0.9011</small>
<button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
@ -385,18 +385,18 @@ 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 R I S I S I</span></span>
<span><span class="co">#&gt; 2 S R R R I R</span></span>
<span><span class="co">#&gt; 3 R R I I S R</span></span>
<span><span class="co">#&gt; 4 I R S I R R</span></span>
<span><span class="co">#&gt; 5 R S S S R R</span></span>
<span><span class="co">#&gt; 6 R S R R R R</span></span>
<span><span class="co">#&gt; 1 R I S R S I</span></span>
<span><span class="co">#&gt; 2 S S I S I I</span></span>
<span><span class="co">#&gt; 3 R I I R I S</span></span>
<span><span class="co">#&gt; 4 I S S R R I</span></span>
<span><span class="co">#&gt; 5 S R R R R I</span></span>
<span><span class="co">#&gt; 6 R S R I R R</span></span>
<span><span class="co">#&gt; kanamycin</span></span>
<span><span class="co">#&gt; 1 R</span></span>
<span><span class="co">#&gt; 2 S</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; 2 R</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 S</span></span></code></pre></div>
<p>We can now add the interpretation of MDR-TB to our data set. You can
use:</p>
@ -438,40 +438,40 @@ Unique: 5</p>
<tr class="odd">
<td align="left">1</td>
<td align="left">Mono-resistant</td>
<td align="right">3238</td>
<td align="right">64.76%</td>
<td align="right">3238</td>
<td align="right">64.76%</td>
<td align="right">3221</td>
<td align="right">64.42%</td>
<td align="right">3221</td>
<td align="right">64.42%</td>
</tr>
<tr class="even">
<td align="left">2</td>
<td align="left">Negative</td>
<td align="right">1002</td>
<td align="right">20.04%</td>
<td align="right">4240</td>
<td align="right">84.80%</td>
<td align="right">1005</td>
<td align="right">20.10%</td>
<td align="right">4226</td>
<td align="right">84.52%</td>
</tr>
<tr class="odd">
<td align="left">3</td>
<td align="left">Multi-drug-resistant</td>
<td align="right">408</td>
<td align="right">8.16%</td>
<td align="right">4648</td>
<td align="right">92.96%</td>
<td align="right">439</td>
<td align="right">8.78%</td>
<td align="right">4665</td>
<td align="right">93.30%</td>
</tr>
<tr class="even">
<td align="left">4</td>
<td align="left">Poly-resistant</td>
<td align="right">244</td>
<td align="right">4.88%</td>
<td align="right">4892</td>
<td align="right">97.84%</td>
<td align="right">241</td>
<td align="right">4.82%</td>
<td align="right">4906</td>
<td align="right">98.12%</td>
</tr>
<tr class="odd">
<td align="left">5</td>
<td align="left">Extensively drug-resistant</td>
<td align="right">108</td>
<td align="right">2.16%</td>
<td align="right">94</td>
<td align="right">1.88%</td>
<td align="right">5000</td>
<td align="right">100.00%</td>
</tr>