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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="">1.8.2.9033</small>
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<small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.8.2.9034</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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@ -178,42 +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] 0.125 0.001 1 16 0.025 0.002 0.125 2 128 0.01 </span>
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<span class="r-out co"><span class="r-pr">#></span> [11] 256 64 256 0.005 2 32 0.0625 8 0.025 0.25 </span>
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<span class="r-out co"><span class="r-pr">#></span> [21] 0.005 0.01 0.002 128 0.001 </span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 64 0.125 4 0.25 64 128 0.125 128 256 0.001 </span>
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<span class="r-out co"><span class="r-pr">#></span> [11] 0.5 1 0.5 0.25 0.001 256 128 0.0625 0.0625 0.01 </span>
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<span class="r-out co"><span class="r-pr">#></span> [21] 0.001 0.125 0.002 0.005 0.001 </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-err co"><span class="r-pr">#></span> <span class="error">Error in seq.default(from = as.integer(min(df$breakpoint_R)/1.25), to = as.integer(max(df$breakpoint_S) * 1.25), by = 1):</span> 'from' must be a finite number</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] 43 40 47 19 6 8 26 46 43 13 48 14 24 43 45 29 42 46 6 19 19 47 28 17 41</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 S S R I S S I I I S S I I R R R R S I I</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] I I S S R R R I I R I R S S R R S S I R R S I R 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] 0.0625 32 2 >=128 0.25 0.25 0.125 64 4 4 </span>
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<span class="r-out co"><span class="r-pr">#></span> [11] 0.01 0.5 1 >=128 0.25 8 8 64 32 0.25 </span>
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<span class="r-out co"><span class="r-pr">#></span> [21] 0.002 0.01 0.005 0.005 0.005 </span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 8 4 0.002 0.01 0.005 0.0625 0.005 8 >=64 0.5 </span>
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<span class="r-out co"><span class="r-pr">#></span> [11] 0.0625 >=64 0.001 0.01 0.25 0.0625 0.125 0.125 1 32 </span>
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<span class="r-out co"><span class="r-pr">#></span> [21] 0.002 0.025 0.002 8 0.025 </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] 4 >=32 4 0.5 4 4 <=0.25 <=0.25 >=32 >=32 </span>
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<span class="r-out co"><span class="r-pr">#></span> [11] 1 16 >=32 >=32 1 1 0.5 >=32 16 4 </span>
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<span class="r-out co"><span class="r-pr">#></span> [21] <=0.25 2 2 2 2 </span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 64 64 16 8 2 32 16 2 64 4 8 64 8 64 64 8 4 4 4 </span>
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<span class="r-out co"><span class="r-pr">#></span> [20] 4 64 0.5 16 0.5 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] 0.5 0.0625 4 4 0.125 <=0.025 0.125 2 4 </span>
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<span class="r-out co"><span class="r-pr">#></span> [10] 0.0625 <=0.025 0.0625 2 2 8 0.0625 1 <=0.025</span>
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<span class="r-out co"><span class="r-pr">#></span> [19] <=0.025 0.25 4 <=0.025 <=0.025 0.25 0.5 </span>
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<span class="r-out co"><span class="r-pr">#></span> [1] <=0.0625 0.125 1 <=0.0625 <=0.0625 <=0.0625 2 0.125 </span>
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<span class="r-out co"><span class="r-pr">#></span> [9] <=0.0625 4 <=0.0625 0.25 >=8 1 0.125 4 </span>
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<span class="r-out co"><span class="r-pr">#></span> [17] 2 0.125 <=0.0625 4 0.25 0.5 2 2 </span>
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<span class="r-out co"><span class="r-pr">#></span> [25] >=8 </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] 18 30 42 26 20 26 42 10 19 34 48 49 34 49 27 29 44 32 9 17 32 13 25 40 18</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 19 40 40 47 26 36 39 28 33 48 12 45 31 40 42 39 45 37 42 12 45 46 32 10 24</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 13 17 17 14 15 13 16 13 15 11 13 15 13 16 15 12 15 17 14 16 13 13 12 15</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 15 14 17 11 16 14 12 12 16 13 11 15 15 12 13 17 17 13 15 16 11 15 16 12 12</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] 26 17 19 16 25 23 19 26 16 15 22 16 22 24 20 26 26 23 22 26 15 25 17 19 15</span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 18 17 18 16 21 21 23 17 17 26 15 19 18 23 23 18 22 24 21 25 26 15 26 19 24</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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