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@ -10,7 +10,7 @@
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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="">1.8.1.9021</small>
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<small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.8.1.9026</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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@ -82,11 +82,6 @@
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Get properties of an antibiotic
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</a>
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<a class="dropdown-item" href="../articles/benchmarks.html">
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<span class="fa fa-shipping-fast"></span>
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Other: benchmarks
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</a>
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</div>
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</li>
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<li class="active nav-item">
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@ -183,42 +178,43 @@
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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] 8 64 8 0.25 8 2 0.005 16 256 32 16 0.125</span>
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<span class="r-out co"><span class="r-pr">#></span> [13] 0.125 64 32 0.25 256 4 1 0.125 32 0.5 0.025 128 </span>
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<span class="r-out co"><span class="r-pr">#></span> [25] 0.25 </span>
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<span class="r-out co"><span class="r-pr">#></span> [1] <=0.001 1 0.25 128 0.01 0.025 0.025 16 8 </span>
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<span class="r-out co"><span class="r-pr">#></span> [10] 128 64 16 <=0.001 0.01 0.0625 0.0625 0.5 0.0625 </span>
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<span class="r-out co"><span class="r-pr">#></span> [19] 0.025 8 128 32 0.025 0.0625 0.01 </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] 27 41 44 30 6 49 34 45 48 31 48 31 31 41 49 46 14 24 31 12 45 24 44 36 38</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 30 11 11 41 49 41 47 7 44 29 15 18 25 6 30 49 24 38 15 23 15 17 43 45 6</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 I R S S R S S S I I R I R I I S R R R S I S I S</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] S I I S R R I I S R S I S R R R R I S I R I I S 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] 0.125 0.25 0.125 0.002 4 2 8 32 0.0625 0.002 </span>
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<span class="r-out co"><span class="r-pr">#></span> [11] 0.125 0.005 1 0.002 0.001 16 0.025 0.25 0.5 128 </span>
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<span class="r-out co"><span class="r-pr">#></span> [21] 2 0.005 128 4 0.002 </span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 0.01 0.025 8 2 1 0.002 0.125 2 64 0.25 16 32 </span>
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<span class="r-out co"><span class="r-pr">#></span> [13] 0.005 0.125 0.01 256 0.5 1 4 0.25 0.125 0.001 256 0.5 </span>
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<span class="r-out co"><span class="r-pr">#></span> [25] 128 </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] <=1 4 8 8 8 8 8 >=16 2 2 4 2 <=1 8 2 </span>
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<span class="r-out co"><span class="r-pr">#></span> [16] <=1 >=16 2 2 8 4 4 8 <=1 <=1 </span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 0.5 >=64 2 4 8 0.5 >=64 2 1 32 </span>
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<span class="r-out co"><span class="r-pr">#></span> [11] >=64 16 8 <=0.25 <=0.25 4 <=0.25 16 16 <=0.25</span>
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<span class="r-out co"><span class="r-pr">#></span> [21] 16 32 32 <=0.25 <=0.25</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] 0.125 0.25 2 0.5 0.0625 8 0.25 0.25 0.125 1 </span>
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<span class="r-out co"><span class="r-pr">#></span> [11] 2 0.125 0.0625 4 0.5 0.125 2 8 4 0.0625</span>
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<span class="r-out co"><span class="r-pr">#></span> [21] 0.5 0.25 0.5 8 0.25 </span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 0.25 1 >=8 <=0.125 0.25 4 0.5 >=8 >=8 </span>
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<span class="r-out co"><span class="r-pr">#></span> [10] 0.25 0.25 0.25 1 4 <=0.125 1 >=8 4 </span>
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<span class="r-out co"><span class="r-pr">#></span> [19] 4 0.5 2 >=8 >=8 >=8 0.25 </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 30 13 25 19 37 49 26 38 8 46 40 23 25 44 11 40 13 22 34 15 36 47 49 49</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 19 46 14 40 42 13 26 42 12 21 41 26 21 12 24 27 40 21 45 37 24 13 41 17 41</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] 15 14 17 16 15 16 15 11 16 16 15 15 13 13 15 11 15 15 15 17 13 11 15 17 11</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 17 16 17 11 13 14 13 17 17 16 17 12 17 11 16 11 13 15 13 11 16 12 14 16 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] 20 25 18 16 15 19 16 21 23 19 25 18 16 16 16 18 16 27 17 27 23 22 17 19 19</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 22 17 19 18 25 20 18 23 18 15 23 20 24 23 21 20 18 21 18 21 23 15 18 25 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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