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<a class="navbar-brand me-2" href="../index.html">AMR (for R)</a>
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<small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">2.0.0.9023</small>
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<small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">2.0.0.9024</small>
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<button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
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@ -203,49 +203,49 @@
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<div class="section level2">
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<h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
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<p>The base <span style="R">R</span> function <code><a href="https://rdrr.io/r/base/sample.html" class="external-link">sample()</a></code> is used for generating values.</p>
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<p>Generated values are based on the EUCAST 2022 guideline as implemented in the <a href="clinical_breakpoints.html">clinical_breakpoints</a> data set. To create specific generated values per bug or drug, set the <code>mo</code> and/or <code>ab</code> argument.</p>
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<p>Generated values are based on the EUCAST 2023 guideline as implemented in the <a href="clinical_breakpoints.html">clinical_breakpoints</a> data set. To create specific generated values per bug or drug, set the <code>mo</code> and/or <code>ab</code> argument.</p>
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</div>
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<div class="section level2">
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<h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
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<div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="fu">random_mic</span><span class="op">(</span><span class="fl">25</span><span class="op">)</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> Class 'mic'</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 0.005 64 0.001 1 2 0.005 0.025 0.0625 0.005 0.0625</span>
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<span class="r-out co"><span class="r-pr">#></span> [11] >=128 2 8 8 16 0.001 0.125 32 0.01 8 </span>
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<span class="r-out co"><span class="r-pr">#></span> [21] 2 0.5 0.0625 64 >=128 </span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 1 32 0.5 8 0.002 16 32 >=128 <=0.001</span>
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<span class="r-out co"><span class="r-pr">#></span> [10] 0.025 32 16 0.25 0.125 >=128 32 0.25 0.125 </span>
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<span class="r-out co"><span class="r-pr">#></span> [19] 2 0.0625 0.5 0.005 0.005 0.5 0.005 </span>
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<span class="r-in"><span><span class="fu">random_disk</span><span class="op">(</span><span class="fl">25</span><span class="op">)</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> Class 'disk'</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 7 49 8 41 20 28 40 16 41 42 41 45 36 11 50 25 44 9 24 42 38 49 41 45 9</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 20 9 38 12 19 9 15 10 28 47 9 28 40 15 45 50 40 36 31 26 45 35 42 38 18</span>
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<span class="r-in"><span><span class="fu">random_sir</span><span class="op">(</span><span class="fl">25</span><span class="op">)</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> Class 'sir'</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] R R S S R I R I I R S S I I I I I I I S I I S I S</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] I R I S R S I I R R S S R S R R R I S S R I I I I</span>
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<span class="r-in"><span></span></span>
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<span class="r-in"><span><span class="co"># \donttest{</span></span></span>
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<span class="r-in"><span><span class="co"># make the random generation more realistic by setting a bug and/or drug:</span></span></span>
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<span class="r-in"><span><span class="fu">random_mic</span><span class="op">(</span><span class="fl">25</span>, <span class="st">"Klebsiella pneumoniae"</span><span class="op">)</span> <span class="co"># range 0.0625-64</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> Class 'mic'</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 0.002 64 0.005 0.001 0.5 0.025 2 0.005 0.0625 0.005 </span>
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<span class="r-out co"><span class="r-pr">#></span> [11] 0.125 8 2 0.125 16 0.0625 0.001 0.005 0.005 0.01 </span>
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<span class="r-out co"><span class="r-pr">#></span> [21] 0.005 64 0.005 0.025 0.0625</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 0.001 1 >=32 0.5 0.5 0.5 16 0.01 0.0625 0.005 </span>
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<span class="r-out co"><span class="r-pr">#></span> [11] 4 0.5 4 0.125 0.001 0.125 0.002 0.01 0.5 0.0625</span>
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<span class="r-out co"><span class="r-pr">#></span> [21] >=32 0.001 2 16 0.001 </span>
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<span class="r-in"><span><span class="fu">random_mic</span><span class="op">(</span><span class="fl">25</span>, <span class="st">"Klebsiella pneumoniae"</span>, <span class="st">"meropenem"</span><span class="op">)</span> <span class="co"># range 0.0625-16</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> Class 'mic'</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 8 1 >=32 2 8 1 4 16 1 8 1 1 >=32 16 16 </span>
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<span class="r-out co"><span class="r-pr">#></span> [16] 16 2 >=32 1 8 8 1 4 1 16 </span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 8 4 0.5 4 2 4 >=16 >=16 2 1 2 4 2 4 4 </span>
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<span class="r-out co"><span class="r-pr">#></span> [16] 8 2 >=16 4 8 4 8 1 4 2 </span>
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<span class="r-in"><span><span class="fu">random_mic</span><span class="op">(</span><span class="fl">25</span>, <span class="st">"Streptococcus pneumoniae"</span>, <span class="st">"meropenem"</span><span class="op">)</span> <span class="co"># range 0.0625-4</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> Class 'mic'</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 1 >=8 0.5 2 1 1 0.25 0.125 4 >=8 >=8 0.125</span>
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<span class="r-out co"><span class="r-pr">#></span> [13] >=8 >=8 4 2 0.25 >=8 >=8 4 >=8 4 0.125 2 </span>
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<span class="r-out co"><span class="r-pr">#></span> [25] 2 </span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 0.0625 0.125 4 0.125 0.25 4 8 0.25 1 >=16 </span>
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<span class="r-out co"><span class="r-pr">#></span> [11] 8 4 8 0.0625 0.5 0.25 >=16 0.5 2 0.25 </span>
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<span class="r-out co"><span class="r-pr">#></span> [21] 4 0.0625 4 2 0.125 </span>
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<span class="r-in"><span></span></span>
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<span class="r-in"><span><span class="fu">random_disk</span><span class="op">(</span><span class="fl">25</span>, <span class="st">"Klebsiella pneumoniae"</span><span class="op">)</span> <span class="co"># range 8-50</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> Class 'disk'</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 46 14 10 45 47 37 40 15 19 44 16 20 26 46 43 12 10 22 43 49 48 47 13 15 35</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 9 14 25 18 50 13 9 32 46 45 50 46 42 28 29 37 29 14 16 41 29 9 25 44 20</span>
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<span class="r-in"><span><span class="fu">random_disk</span><span class="op">(</span><span class="fl">25</span>, <span class="st">"Klebsiella pneumoniae"</span>, <span class="st">"ampicillin"</span><span class="op">)</span> <span class="co"># range 11-17</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> Class 'disk'</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 11 17 14 15 13 17 17 12 17 14 16 16 11 12 16 12 13 11 15 12 17 15 11 14 11</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 14 12 17 12 11 17 12 16 17 14 11 11 16 12 16 14 17 12 17 17 13 11 13 13 13</span>
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<span class="r-in"><span><span class="fu">random_disk</span><span class="op">(</span><span class="fl">25</span>, <span class="st">"Streptococcus pneumoniae"</span>, <span class="st">"ampicillin"</span><span class="op">)</span> <span class="co"># range 12-27</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> Class 'disk'</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 24 20 20 23 24 25 21 16 27 16 21 21 27 23 23 23 20 15 23 25 21 17 21 16 20</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 18 20 25 26 20 22 24 24 24 18 23 20 16 15 25 17 16 19 24 16 21 15 19 15 22</span>
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<span class="r-in"><span><span class="co"># }</span></span></span>
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</code></pre></div>
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</div>
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