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<h1>Get ATC properties from WHOCC website</h1>
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<div class="hidden name"><code>atc_online.Rd</code></div>
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</div>
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<div class="ref-description">
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<p>Gets data from the WHO to determine properties of an ATC (e.g. an antibiotic) like name, defined daily dose (DDD) or standard unit.</p>
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<p><strong>This function requires an internet connection.</strong></p>
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</div>
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<pre class="usage"><span class='fu'>atc_online_property</span>(
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<span class='no'>atc_code</span>,
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<span class='no'>property</span>,
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<span class='kw'>administration</span> <span class='kw'>=</span> <span class='st'>"O"</span>,
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<span class='kw'>url</span> <span class='kw'>=</span> <span class='st'>"https://www.whocc.no/atc_ddd_index/?code=%s&showdescription=no"</span>
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)
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<span class='fu'>atc_online_groups</span>(<span class='no'>atc_code</span>, <span class='no'>...</span>)
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<span class='fu'>atc_online_ddd</span>(<span class='no'>atc_code</span>, <span class='no'>...</span>)</pre>
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<h2 class="hasAnchor" id="arguments"><a class="anchor" href="#arguments"></a>Arguments</h2>
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<table class="ref-arguments">
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<colgroup><col class="name" /><col class="desc" /></colgroup>
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<tr>
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<th>atc_code</th>
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<td><p>a character or character vector with ATC code(s) of antibiotic(s)</p></td>
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</tr>
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<tr>
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<th>property</th>
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<td><p>property of an ATC code. Valid values are <code>"ATC"</code>, <code>"Name"</code>, <code>"DDD"</code>, <code>"U"</code> (<code>"unit"</code>), <code>"Adm.R"</code>, <code>"Note"</code> and <code>groups</code>. For this last option, all hierarchical groups of an ATC code will be returned, see Examples.</p></td>
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</tr>
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<tr>
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<th>administration</th>
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<td><p>type of administration when using <code>property = "Adm.R"</code>, see Details</p></td>
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</tr>
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<tr>
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<th>url</th>
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<td><p>url of website of the WHO. The sign <code>%s</code> can be used as a placeholder for ATC codes.</p></td>
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</tr>
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<tr>
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<th>...</th>
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<td><p>parameters to pass on to <code>atc_property</code></p></td>
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</tr>
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</table>
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<h2 class="hasAnchor" id="source"><a class="anchor" href="#source"></a>Source</h2>
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<p><a href='https://www.whocc.no/atc_ddd_alterations__cumulative/ddd_alterations/abbrevations/'>https://www.whocc.no/atc_ddd_alterations__cumulative/ddd_alterations/abbrevations/</a></p>
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<h2 class="hasAnchor" id="details"><a class="anchor" href="#details"></a>Details</h2>
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<p>Options for parameter <code>administration</code>:</p><ul>
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<li><p><code>"Implant"</code> = Implant</p></li>
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<li><p><code>"Inhal"</code> = Inhalation</p></li>
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<li><p><code>"Instill"</code> = Instillation</p></li>
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<li><p><code>"N"</code> = nasal</p></li>
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<li><p><code>"O"</code> = oral</p></li>
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<li><p><code>"P"</code> = parenteral</p></li>
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<li><p><code>"R"</code> = rectal</p></li>
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<li><p><code>"SL"</code> = sublingual/buccal</p></li>
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<li><p><code>"TD"</code> = transdermal</p></li>
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<li><p><code>"V"</code> = vaginal</p></li>
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</ul>
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<p>Abbreviations of return values when using <code>property = "U"</code> (unit):</p><ul>
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<li><p><code>"g"</code> = gram</p></li>
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<li><p><code>"mg"</code> = milligram</p></li>
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<li><p>`"mcg"`` = microgram</p></li>
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<li><p><code>"U"</code> = unit</p></li>
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<li><p><code>"TU"</code> = thousand units</p></li>
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<li><p><code>"MU"</code> = million units</p></li>
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<li><p><code>"mmol"</code> = millimole</p></li>
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<li><p><code>"ml"</code> = milliliter (e.g. eyedrops)</p></li>
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</ul>
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<h2 class="hasAnchor" id="questioning-lifecycle"><a class="anchor" href="#questioning-lifecycle"></a>Questioning lifecycle</h2>
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<p><img src='figures/lifecycle_questioning.svg' style=margin-bottom:5px /> <br />
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The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>questioning</strong>. We are no longer convinced that this function is the optimal approach (but we do not know yet what a better approach would be), or whether this function should be in our <code>AMR</code> package at all.</p>
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<h2 class="hasAnchor" id="read-more-on-our-website-"><a class="anchor" href="#read-more-on-our-website-"></a>Read more on our website!</h2>
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<p>On our website <a href='https://msberends.gitlab.io/AMR'>https://msberends.gitlab.io/AMR</a> you can find <a href='https://msberends.gitlab.io/AMR/articles/AMR.html'>a comprehensive tutorial</a> about how to conduct AMR analysis, the <a href='https://msberends.gitlab.io/AMR/reference'>complete documentation of all functions</a> (which reads a lot easier than here in R) and <a href='https://msberends.gitlab.io/AMR/articles/WHONET.html'>an example analysis using WHONET data</a>.</p>
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<h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2>
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<pre class="examples"><span class='co'># \donttest{</span>
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<span class='co'># oral DDD (Defined Daily Dose) of amoxicillin</span>
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<span class='fu'>atc_online_property</span>(<span class='st'>"J01CA04"</span>, <span class='st'>"DDD"</span>, <span class='st'>"O"</span>)
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<span class='co'># parenteral DDD (Defined Daily Dose) of amoxicillin</span>
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<span class='fu'>atc_online_property</span>(<span class='st'>"J01CA04"</span>, <span class='st'>"DDD"</span>, <span class='st'>"P"</span>)
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<span class='fu'>atc_online_property</span>(<span class='st'>"J01CA04"</span>, <span class='kw'>property</span> <span class='kw'>=</span> <span class='st'>"groups"</span>) <span class='co'># search hierarchical groups of amoxicillin</span>
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<span class='co'># [1] "ANTIINFECTIVES FOR SYSTEMIC USE"</span>
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<span class='co'># [2] "ANTIBACTERIALS FOR SYSTEMIC USE"</span>
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<span class='co'># [3] "BETA-LACTAM ANTIBACTERIALS, PENICILLINS"</span>
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<span class='co'># [4] "Penicillins with extended spectrum"</span>
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<span class='co'># }</span></pre>
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<h2>Contents</h2>
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<ul class="nav nav-pills nav-stacked">
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<li><a href="#arguments">Arguments</a></li>
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<li><a href="#source">Source</a></li>
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<li><a href="#details">Details</a></li>
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<li><a href="#questioning-lifecycle">Questioning lifecycle</a></li>
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<li><a href="#read-more-on-our-website-">Read more on our website!</a></li>
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<li><a href="#examples">Examples</a></li>
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<p>Developed by <a href='https://www.rug.nl/staff/m.s.berends/'>Matthijs S. Berends</a>, <a href='https://www.rug.nl/staff/c.f.luz/'>Christian F. Luz</a>, <a href='https://www.rug.nl/staff/a.w.friedrich/'>Alexander W. Friedrich</a>, <a href='https://www.rug.nl/staff/b.sinha/'>Bhanu N. M. Sinha</a>, <a href='https://www.rug.nl/staff/c.j.albers/'>Casper J. Albers</a>, <a href='https://www.rug.nl/staff/c.glasner/'>Corinna Glasner</a>.</p>
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