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@ -15,7 +15,7 @@
<link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png">
<script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no">
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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="">2.0.0.9013</small>
<small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">2.0.0.9014</small>
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@ -385,19 +385,19 @@ 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 S I R I S S</span></span>
<span><span class="co">#&gt; 2 I I R I R R</span></span>
<span><span class="co">#&gt; 3 I S S I R R</span></span>
<span><span class="co">#&gt; 4 I R R I I I</span></span>
<span><span class="co">#&gt; 5 I S S R I R</span></span>
<span><span class="co">#&gt; 6 R R I R S I</span></span>
<span><span class="co">#&gt; 1 S R R S R R</span></span>
<span><span class="co">#&gt; 2 S R S I S R</span></span>
<span><span class="co">#&gt; 3 S R I I I S</span></span>
<span><span class="co">#&gt; 4 S I R I R R</span></span>
<span><span class="co">#&gt; 5 R S R R R I</span></span>
<span><span class="co">#&gt; 6 S S S R I R</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 S</span></span>
<span><span class="co">#&gt; 3 S</span></span>
<span><span class="co">#&gt; 4 R</span></span>
<span><span class="co">#&gt; 5 S</span></span>
<span><span class="co">#&gt; 6 S</span></span></code></pre></div>
<span><span class="co">#&gt; 1 I</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 S</span></span>
<span><span class="co">#&gt; 5 R</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">
@ -438,40 +438,40 @@ Unique: 5</p>
<tr class="odd">
<td align="left">1</td>
<td align="left">Mono-resistant</td>
<td align="right">3159</td>
<td align="right">63.18%</td>
<td align="right">3159</td>
<td align="right">63.18%</td>
<td align="right">3189</td>
<td align="right">63.78%</td>
<td align="right">3189</td>
<td align="right">63.78%</td>
</tr>
<tr class="even">
<td align="left">2</td>
<td align="left">Negative</td>
<td align="right">992</td>
<td align="right">19.84%</td>
<td align="right">4151</td>
<td align="right">83.02%</td>
<td align="right">996</td>
<td align="right">19.92%</td>
<td align="right">4185</td>
<td align="right">83.70%</td>
</tr>
<tr class="odd">
<td align="left">3</td>
<td align="left">Multi-drug-resistant</td>
<td align="right">472</td>
<td align="right">9.44%</td>
<td align="right">4623</td>
<td align="right">92.46%</td>
<td align="right">465</td>
<td align="right">9.30%</td>
<td align="right">4650</td>
<td align="right">93.00%</td>
</tr>
<tr class="even">
<td align="left">4</td>
<td align="left">Poly-resistant</td>
<td align="right">260</td>
<td align="right">5.20%</td>
<td align="right">4883</td>
<td align="right">97.66%</td>
<td align="right">239</td>
<td align="right">4.78%</td>
<td align="right">4889</td>
<td align="right">97.78%</td>
</tr>
<tr class="odd">
<td align="left">5</td>
<td align="left">Extensively drug-resistant</td>
<td align="right">117</td>
<td align="right">2.34%</td>
<td align="right">111</td>
<td align="right">2.22%</td>
<td align="right">5000</td>
<td align="right">100.00%</td>
</tr>