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<img src="../logo.svg" class="logo" alt=""><h1>Data Set with Treatment Dosages as Defined by EUCAST</h1>
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<small class="dont-index">Source: <a href="https://github.com/msberends/AMR/blob/HEAD/R/data.R" class="external-link"><code>R/data.R</code></a></small>
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<div class="d-none name"><code>dosage.Rd</code></div>
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<div class="ref-description section level2">
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<p>EUCAST breakpoints used in this package are based on the dosages in this data set. They can be retrieved with <code><a href="eucast_rules.html">eucast_dosage()</a></code>.</p>
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</div>
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<div class="section level2">
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<h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage"></a></h2>
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<div class="sourceCode"><pre class="sourceCode r"><code><span><span class="va">dosage</span></span></code></pre></div>
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</div>
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<div class="section level2">
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<h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a></h2>
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<p>A <a href="https://rdrr.io/r/base/data.frame.html" class="external-link">data.frame</a> with 169 observations and 9 variables:</p><ul><li><p><code>ab</code><br> Antibiotic ID as used in this package (such as <code>AMC</code>), using the official EARS-Net (European Antimicrobial Resistance Surveillance Network) codes where available</p></li>
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<li><p><code>name</code><br> Official name of the antimicrobial agent as used by WHONET/EARS-Net or the WHO</p></li>
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<li><p><code>type</code><br> Type of the dosage, either "high_dosage", "standard_dosage" or "uncomplicated_uti"</p></li>
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<li><p><code>dose</code><br> Dose, such as "2 g" or "25 mg/kg"</p></li>
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<li><p><code>dose_times</code><br> Number of times a dose must be administered</p></li>
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<li><p><code>administration</code><br> Route of administration, either "im", "iv" or "oral"</p></li>
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<li><p><code>notes</code><br> Additional dosage notes</p></li>
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<li><p><code>original_txt</code><br> Original text in the PDF file of EUCAST</p></li>
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<li><p><code>eucast_version</code><br> Version number of the EUCAST Clinical Breakpoints guideline to which these dosages apply</p></li>
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</ul></div>
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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><a href="https://www.eucast.org/clinical_breakpoints/" class="external-link">'EUCAST Clinical Breakpoint Tables' v11.0</a> (2021) are based on the dosages in this data set.</p>
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<div class="section level2">
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<h2 id="reference-data-publicly-available">Reference Data Publicly Available<a class="anchor" aria-label="anchor" href="#reference-data-publicly-available"></a></h2>
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<p>All reference data sets (about microorganisms, antibiotics, R/SI interpretation, EUCAST rules, etc.) in this <code>AMR</code> package are publicly and freely available. We continually export our data sets to formats for use in R, SPSS, SAS, Stata and Excel. We also supply flat files that are machine-readable and suitable for input in any software program, such as laboratory information systems. Please find <a href="https://msberends.github.io/AMR/articles/datasets.html">all download links on our website</a>, which is automatically updated with every code change.</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"><a href="https://rdrr.io/r/utils/head.html" class="external-link">head</a></span><span class="op">(</span><span class="va">dosage</span><span class="op">)</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> ab name type dose dose_times administration notes</span>
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<span class="r-out co"><span class="r-pr">#></span> 1 AMK Amikacin standard_dosage 25-30 mg/kg 1 iv </span>
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<span class="r-out co"><span class="r-pr">#></span> 2 AMX Amoxicillin high_dosage 2 g 6 iv </span>
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<span class="r-out co"><span class="r-pr">#></span> 3 AMX Amoxicillin standard_dosage 1 g 3 iv </span>
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<span class="r-out co"><span class="r-pr">#></span> 4 AMX Amoxicillin high_dosage 0.75-1 g 3 oral </span>
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<span class="r-out co"><span class="r-pr">#></span> 5 AMX Amoxicillin standard_dosage 0.5 g 3 oral </span>
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<span class="r-out co"><span class="r-pr">#></span> 6 AMX Amoxicillin uncomplicated_uti 0.5 g 3 oral </span>
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<span class="r-out co"><span class="r-pr">#></span> original_txt eucast_version</span>
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<span class="r-out co"><span class="r-pr">#></span> 1 25-30 mg/kg x 1 iv 11</span>
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<span class="r-out co"><span class="r-pr">#></span> 2 2 g x 6 iv 11</span>
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<span class="r-out co"><span class="r-pr">#></span> 3 1 g x 3-4 iv 11</span>
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<span class="r-out co"><span class="r-pr">#></span> 4 0.75-1 g x 3 oral 11</span>
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<span class="r-out co"><span class="r-pr">#></span> 5 0.5 g x 3 oral 11</span>
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<span class="r-out co"><span class="r-pr">#></span> 6 0.5 g x 3 oral 11</span>
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</code></pre></div>
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<p></p><p><code>AMR</code> (for R). Developed at the <a target="_blank" href="https://www.rug.nl" class="external-link">University of Groningen</a> in collaboration with non-profit organisations<br><a target="_blank" href="https://www.certe.nl" class="external-link">Certe Medical Diagnostics and Advice Foundation</a> and <a target="_blank" href="https://www.umcg.nl" class="external-link">University Medical Center Groningen</a>.</p>
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