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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="">1.8.2.9047</small>
<small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.8.2.9049</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">
@ -111,6 +111,11 @@
Get properties of an antibiotic
</a>
<a class="dropdown-item" href="../reference/av_property.html">
<span class="fa fa-capsules"></span>
Get properties of an antiviral agent
</a>
</div>
</li>
<li class="nav-item">
@ -370,19 +375,19 @@ 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"># rifampicin isoniazid gatifloxacin ethambutol pyrazinamide moxifloxacin</span></span>
<span><span class="co"># 1 I I I S S R</span></span>
<span><span class="co"># 2 R S S S I I</span></span>
<span><span class="co"># 3 S R R R S R</span></span>
<span><span class="co"># 4 S I R S I I</span></span>
<span><span class="co"># 5 S S S I S R</span></span>
<span><span class="co"># 6 I S R S I I</span></span>
<span><span class="co"># 1 S S R I S I</span></span>
<span><span class="co"># 2 R R I S R I</span></span>
<span><span class="co"># 3 I I R R R R</span></span>
<span><span class="co"># 4 S S S I R I</span></span>
<span><span class="co"># 5 S I S R R I</span></span>
<span><span class="co"># 6 I R S R I I</span></span>
<span><span class="co"># kanamycin</span></span>
<span><span class="co"># 1 I</span></span>
<span><span class="co"># 1 S</span></span>
<span><span class="co"># 2 S</span></span>
<span><span class="co"># 3 R</span></span>
<span><span class="co"># 4 I</span></span>
<span><span class="co"># 5 R</span></span>
<span><span class="co"># 6 I</span></span></code></pre></div>
<span><span class="co"># 3 S</span></span>
<span><span class="co"># 4 R</span></span>
<span><span class="co"># 5 S</span></span>
<span><span class="co"># 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">
@ -423,40 +428,40 @@ Unique: 5</p>
<tr class="odd">
<td align="left">1</td>
<td align="left">Mono-resistant</td>
<td align="right">3140</td>
<td align="right">62.80%</td>
<td align="right">3140</td>
<td align="right">62.80%</td>
<td align="right">3191</td>
<td align="right">63.82%</td>
<td align="right">3191</td>
<td align="right">63.82%</td>
</tr>
<tr class="even">
<td align="left">2</td>
<td align="left">Negative</td>
<td align="right">1031</td>
<td align="right">20.62%</td>
<td align="right">4171</td>
<td align="right">83.42%</td>
<td align="right">1008</td>
<td align="right">20.16%</td>
<td align="right">4199</td>
<td align="right">83.98%</td>
</tr>
<tr class="odd">
<td align="left">3</td>
<td align="left">Multi-drug-resistant</td>
<td align="right">463</td>
<td align="right">9.26%</td>
<td align="right">4634</td>
<td align="right">92.68%</td>
<td align="right">495</td>
<td align="right">9.90%</td>
<td align="right">4694</td>
<td align="right">93.88%</td>
</tr>
<tr class="even">
<td align="left">4</td>
<td align="left">Poly-resistant</td>
<td align="right">252</td>
<td align="right">5.04%</td>
<td align="right">4886</td>
<td align="right">97.72%</td>
<td align="right">216</td>
<td align="right">4.32%</td>
<td align="right">4910</td>
<td align="right">98.20%</td>
</tr>
<tr class="odd">
<td align="left">5</td>
<td align="left">Extensively drug-resistant</td>
<td align="right">114</td>
<td align="right">2.28%</td>
<td align="right">90</td>
<td align="right">1.80%</td>
<td align="right">5000</td>
<td align="right">100.00%</td>
</tr>