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(v1.4.0.9053) unit test old R versions

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dr. M.S. (Matthijs) Berends
2020-12-29 21:23:01 +01:00
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docs/articles/MDR.html
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@ -39,7 +39,7 @@
</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="Latest development version">1.4.0.9046</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.5.0</span>
</span>
</div>
@ -311,19 +311,19 @@ Unique: 2</p>
<div class="sourceCode" id="cb5"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span class="fu"><a href="https://rdrr.io/r/utils/head.html">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 I R S I S</span>
<span class="co"># 2 I S I S S R</span>
<span class="co"># 3 I I I R I R</span>
<span class="co"># 4 S S I S R I</span>
<span class="co"># 5 I R S R S R</span>
<span class="co"># 6 I I I R S I</span>
<span class="co"># 1 S R S S I R</span>
<span class="co"># 2 R I S I S I</span>
<span class="co"># 3 I I R S I S</span>
<span class="co"># 4 R S R I R S</span>
<span class="co"># 5 I R I I I R</span>
<span class="co"># 6 I R I R S R</span>
<span class="co"># kanamycin</span>
<span class="co"># 1 S</span>
<span class="co"># 1 R</span>
<span class="co"># 2 I</span>
<span class="co"># 3 I</span>
<span class="co"># 4 S</span>
<span class="co"># 5 I</span>
<span class="co"># 6 R</span></code></pre></div>
<span class="co"># 4 I</span>
<span class="co"># 5 S</span>
<span class="co"># 6 S</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="cb6"><pre class="downlit sourceCode r">
<code class="sourceCode R"><span class="fu"><a href="../reference/mdro.html">mdro</a></span><span class="op">(</span><span class="va">my_TB_data</span>, guideline <span class="op">=</span> <span class="st">"TB"</span><span class="op">)</span></code></pre></div>
@ -354,40 +354,40 @@ Unique: 5</p>
<tr class="odd">
<td align="left">1</td>
<td align="left">Mono-resistant</td>
<td align="right">3219</td>
<td align="right">64.38%</td>
<td align="right">3219</td>
<td align="right">64.38%</td>
<td align="right">3286</td>
<td align="right">65.72%</td>
<td align="right">3286</td>
<td align="right">65.72%</td>
</tr>
<tr class="even">
<td align="left">2</td>
<td align="left">Negative</td>
<td align="right">982</td>
<td align="right">19.64%</td>
<td align="right">4201</td>
<td align="right">84.02%</td>
<td align="right">992</td>
<td align="right">19.84%</td>
<td align="right">4278</td>
<td align="right">85.56%</td>
</tr>
<tr class="odd">
<td align="left">3</td>
<td align="left">Multi-drug-resistant</td>
<td align="right">434</td>
<td align="right">8.68%</td>
<td align="right">4635</td>
<td align="right">92.70%</td>
<td align="right">424</td>
<td align="right">8.48%</td>
<td align="right">4702</td>
<td align="right">94.04%</td>
</tr>
<tr class="even">
<td align="left">4</td>
<td align="left">Poly-resistant</td>
<td align="right">251</td>
<td align="right">5.02%</td>
<td align="right">4886</td>
<td align="right">97.72%</td>
<td align="right">214</td>
<td align="right">4.28%</td>
<td align="right">4916</td>
<td align="right">98.32%</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">84</td>
<td align="right">1.68%</td>
<td align="right">5000</td>
<td align="right">100.00%</td>
</tr>