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(v1.8.0) prerelease 1.8.0

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dr. M.S. (Matthijs) Berends
2021-12-23 18:56:28 +01:00
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docs/articles/MDR.html
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@ -44,7 +44,7 @@
</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.7.1.9068</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.8.0</span>
</span>
</div>
@ -358,18 +358,18 @@ Unique: 2</p>
<div class="sourceCode" id="cb8"><pre class="downlit sourceCode r">
<code class="sourceCode R"><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 class="co"># rifampicin isoniazid gatifloxacin ethambutol pyrazinamide moxifloxacin</span>
<span class="co"># 1 R R I S I I</span>
<span class="co"># 2 I I I I R S</span>
<span class="co"># 3 I R S I R S</span>
<span class="co"># 4 R S I I I R</span>
<span class="co"># 5 S S R I I S</span>
<span class="co"># 6 R R R I S R</span>
<span class="co"># 1 I R I S R S</span>
<span class="co"># 2 I S R R S R</span>
<span class="co"># 3 R I S I R S</span>
<span class="co"># 4 S S I R I S</span>
<span class="co"># 5 S R S S S I</span>
<span class="co"># 6 S R R S R I</span>
<span class="co"># kanamycin</span>
<span class="co"># 1 I</span>
<span class="co"># 2 R</span>
<span class="co"># 3 S</span>
<span class="co"># 1 S</span>
<span class="co"># 2 I</span>
<span class="co"># 3 R</span>
<span class="co"># 4 R</span>
<span class="co"># 5 R</span>
<span class="co"># 5 I</span>
<span class="co"># 6 R</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">
@ -413,40 +413,40 @@ Unique: 5</p>
<tr class="odd">
<td align="left">1</td>
<td align="left">Mono-resistant</td>
<td align="right">3246</td>
<td align="right">64.92%</td>
<td align="right">3246</td>
<td align="right">64.92%</td>
<td align="right">3250</td>
<td align="right">65.00%</td>
<td align="right">3250</td>
<td align="right">65.00%</td>
</tr>
<tr class="even">
<td align="left">2</td>
<td align="left">Negative</td>
<td align="right">999</td>
<td align="right">19.98%</td>
<td align="right">4245</td>
<td align="right">84.90%</td>
<td align="right">975</td>
<td align="right">19.50%</td>
<td align="right">4225</td>
<td align="right">84.50%</td>
</tr>
<tr class="odd">
<td align="left">3</td>
<td align="left">Multi-drug-resistant</td>
<td align="right">437</td>
<td align="right">8.74%</td>
<td align="right">4682</td>
<td align="right">93.64%</td>
<td align="right">474</td>
<td align="right">9.48%</td>
<td align="right">4699</td>
<td align="right">93.98%</td>
</tr>
<tr class="even">
<td align="left">4</td>
<td align="left">Poly-resistant</td>
<td align="right">218</td>
<td align="right">4.36%</td>
<td align="right">4900</td>
<td align="right">98.00%</td>
<td align="right">203</td>
<td align="right">4.06%</td>
<td align="right">4902</td>
<td align="right">98.04%</td>
</tr>
<tr class="odd">
<td align="left">5</td>
<td align="left">Extensively drug-resistant</td>
<td align="right">100</td>
<td align="right">2.00%</td>
<td align="right">98</td>
<td align="right">1.96%</td>
<td align="right">5000</td>
<td align="right">100.00%</td>
</tr>