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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="">1.8.2.9049</small>
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<small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.8.2.9050</small>
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@ -133,7 +133,7 @@
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</div>
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<div class="ref-description section level2">
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<p>These functions can be used for generating random MIC values and disk diffusion diameters, for AMR data analysis practice. By providing a microorganism and antimicrobial agent, the generated results will reflect reality as much as possible.</p>
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<p>These functions can be used for generating random MIC values and disk diffusion diameters, for AMR data analysis practice. By providing a microorganism and antimicrobial drug, the generated results will reflect reality as much as possible.</p>
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</div>
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<div class="section level2">
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@ -156,7 +156,7 @@
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<dt>ab</dt>
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<dd><p>any <a href="https://rdrr.io/r/base/character.html" class="external-link">character</a> that can be coerced to a valid antimicrobial agent code with <code><a href="as.ab.html">as.ab()</a></code></p></dd>
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<dd><p>any <a href="https://rdrr.io/r/base/character.html" class="external-link">character</a> that can be coerced to a valid antimicrobial drug code with <code><a href="as.ab.html">as.ab()</a></code></p></dd>
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<dt>...</dt>
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@ -183,42 +183,42 @@
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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] 0.0625 0.01 4 64 0.005 32 2 0.01 <=0.001</span>
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<span class="r-out co"><span class="r-pr">#></span> [10] 8 128 64 2 8 0.002 0.01 0.0625 0.25 </span>
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<span class="r-out co"><span class="r-pr">#></span> [19] 64 0.01 16 0.25 0.0625 >=256 <=0.001</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 32 0.125 128 8 128 0.25 0.025 0.005 4 1 </span>
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<span class="r-out co"><span class="r-pr">#></span> [11] 0.25 64 2 0.005 32 0.005 8 128 0.01 0.002 </span>
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<span class="r-out co"><span class="r-pr">#></span> [21] 0.0625 128 0.025 1 0.025 </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] 29 36 20 49 33 28 28 23 39 22 10 47 23 49 47 42 30 47 22 37 47 9 19 45 37</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 42 47 14 38 23 43 26 25 47 42 19 43 37 27 11 28 48 21 28 43 35 44 26 31 30</span>
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<span class="r-in"><span><span class="fu">random_rsi</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 'rsi'</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] I S I I I S R R S I R I I R I R S R S R S I R R R</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] R S R R S S R I S I S S I S R R I R S I S R I R R</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] 0.005 32 0.025 0.005 0.005 4 2 0.005 0.01 </span>
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<span class="r-out co"><span class="r-pr">#></span> [10] 0.5 2 0.25 0.025 2 <=0.001 0.5 8 4 </span>
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<span class="r-out co"><span class="r-pr">#></span> [19] 8 0.025 8 0.025 8 2 0.0625 </span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 32 32 0.002 0.002 0.5 0.01 1 0.5 128 128 0.005 0.005</span>
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<span class="r-out co"><span class="r-pr">#></span> [13] 4 1 4 16 8 0.002 >=256 0.01 128 1 0.025 64 </span>
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<span class="r-out co"><span class="r-pr">#></span> [25] >=256</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] 16 16 4 32 0.5 >=64 8 1 1 >=64 0.5 32 >=64 0.5 >=64</span>
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<span class="r-out co"><span class="r-pr">#></span> [16] 0.5 32 16 4 1 32 >=64 0.5 0.5 1 </span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 4 16 8 2 4 0.5 4 2 >=32 >=32 0.5 0.5 8 1 >=32</span>
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<span class="r-out co"><span class="r-pr">#></span> [16] 16 >=32 16 1 16 0.5 8 >=32 1 >=32</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] >=8 2 1 >=8 2 2 >=8 1 0.5 </span>
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<span class="r-out co"><span class="r-pr">#></span> [10] 1 1 2 0.5 2 0.5 0.5 0.5 >=8 </span>
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<span class="r-out co"><span class="r-pr">#></span> [19] 0.25 <=0.125 1 <=0.125 0.25 0.5 2 </span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 1 1 2 0.5 2 1 >=4 2 0.125 1 </span>
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<span class="r-out co"><span class="r-pr">#></span> [11] 0.5 0.0625 0.0625 2 2 1 0.125 2 >=4 1 </span>
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<span class="r-out co"><span class="r-pr">#></span> [21] 0.125 1 0.5 1 0.0625</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] 42 24 15 28 24 44 34 35 49 40 50 26 49 10 50 42 24 43 18 14 47 41 50 33 29</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 11 46 50 15 25 18 23 38 45 50 22 25 50 42 13 47 9 45 26 43 17 10 45 45 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">"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] 14 15 15 12 17 12 11 16 13 12 14 12 14 16 15 17 11 13 13 13 13 12 15 11 13</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 17 11 11 14 15 15 16 15 15 16 15 17 12 17 15 17 16 14 13 11 16 11 11 13 14</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] 23 16 24 19 17 23 16 21 15 19 21 22 16 23 26 15 25 22 20 26 26 16 22 26 23</span>
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||||
<span class="r-out co"><span class="r-pr">#></span> [1] 17 27 21 15 25 19 18 21 16 16 23 16 23 15 16 24 20 27 17 17 19 22 24 17 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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