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<img src="../logo.svg" class="logo" alt=""><h1>Get ATC Properties from WHOCC Website</h1>
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<small class="dont-index">Source: <a href="https://github.com/msberends/AMR/blob/main/R/atc_online.R" class="external-link"><code>R/atc_online.R</code></a></small>
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<div class="d-none name"><code>atc_online.Rd</code></div>
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</div>
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<div class="ref-description section level2">
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<p>Gets data from the WHOCC website to determine properties of an Anatomical Therapeutic Chemical (ATC) (e.g. an antimicrobial), such as the name, defined daily dose (DDD) or standard unit.</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="fu">atc_online_property</span><span class="op">(</span><span class="va">atc_code</span>, <span class="va">property</span>, administration <span class="op">=</span> <span class="st">"O"</span>,</span>
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<span> url <span class="op">=</span> <span class="st">"https://atcddd.fhi.no/atc_ddd_index/?code=%s&showdescription=no"</span>,</span>
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<span> url_vet <span class="op">=</span> <span class="st">"https://atcddd.fhi.no/atcvet/atcvet_index/?code=%s&showdescription=no"</span><span class="op">)</span></span>
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<span></span>
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<span><span class="fu">atc_online_groups</span><span class="op">(</span><span class="va">atc_code</span>, <span class="va">...</span><span class="op">)</span></span>
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<span></span>
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<span><span class="fu">atc_online_ddd</span><span class="op">(</span><span class="va">atc_code</span>, <span class="va">...</span><span class="op">)</span></span>
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<span></span>
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<span><span class="fu">atc_online_ddd_units</span><span class="op">(</span><span class="va">atc_code</span>, <span class="va">...</span><span class="op">)</span></span></code></pre></div>
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</div>
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<div class="section level2">
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<h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
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<p><a href="https://atcddd.fhi.no/atc_ddd_alterations__cumulative/ddd_alterations/abbrevations/" class="external-link">https://atcddd.fhi.no/atc_ddd_alterations__cumulative/ddd_alterations/abbrevations/</a></p>
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</div>
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<div class="section level2">
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<h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#arguments"></a></h2>
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<dl><dt id="arg-atc-code">atc_code<a class="anchor" aria-label="anchor" href="#arg-atc-code"></a></dt>
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<dd><p>A <a href="https://rdrr.io/r/base/character.html" class="external-link">character</a> (vector) with ATC code(s) of antimicrobials, will be coerced with <code><a href="as.ab.html">as.ab()</a></code> and <code><a href="ab_property.html">ab_atc()</a></code> internally if not a valid ATC code.</p></dd>
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<dt id="arg-property">property<a class="anchor" aria-label="anchor" href="#arg-property"></a></dt>
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<dd><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 <em>Examples</em>.</p></dd>
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<dt id="arg-administration">administration<a class="anchor" aria-label="anchor" href="#arg-administration"></a></dt>
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<dd><p>Type of administration when using <code>property = "Adm.R"</code>, see <em>Details</em>.</p></dd>
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<dt id="arg-url">url<a class="anchor" aria-label="anchor" href="#arg-url"></a></dt>
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<dd><p>URL of website of the WHOCC. The sign <code>%s</code> can be used as a placeholder for ATC codes.</p></dd>
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<dt id="arg-url-vet">url_vet<a class="anchor" aria-label="anchor" href="#arg-url-vet"></a></dt>
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<dd><p>URL of website of the WHOCC for veterinary medicine. The sign <code>%s</code> can be used as a placeholder for ATC_vet codes (that all start with "Q").</p></dd>
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<dt id="arg--">...<a class="anchor" aria-label="anchor" href="#arg--"></a></dt>
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<dd><p>Arguments to pass on to <code>atc_property</code>.</p></dd>
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</dl></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>Options for argument <code>administration</code>:</p><ul><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><p>Abbreviations of return values when using <code>property = "U"</code> (unit):</p><ul><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><code>"mcg"</code> = 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> = millilitre (e.g. eyedrops)</p></li>
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</ul><p><strong>N.B. This function requires an internet connection and only works if the following packages are installed: <code>curl</code>, <code>rvest</code>, <code>xml2</code>.</strong></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="co"># \donttest{</span></span></span>
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<span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/ns-load.html" class="external-link">requireNamespace</a></span><span class="op">(</span><span class="st">"curl"</span><span class="op">)</span> <span class="op">&&</span> <span class="fu"><a href="https://rdrr.io/r/base/ns-load.html" class="external-link">requireNamespace</a></span><span class="op">(</span><span class="st">"rvest"</span><span class="op">)</span> <span class="op">&&</span> <span class="fu"><a href="https://rdrr.io/r/base/ns-load.html" class="external-link">requireNamespace</a></span><span class="op">(</span><span class="st">"xml2"</span><span class="op">)</span><span class="op">)</span> <span class="op">{</span></span></span>
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<span class="r-in"><span> <span class="co"># oral DDD (Defined Daily Dose) of amoxicillin</span></span></span>
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<span class="r-in"><span> <span class="fu">atc_online_property</span><span class="op">(</span><span class="st">"J01CA04"</span>, <span class="st">"DDD"</span>, <span class="st">"O"</span><span class="op">)</span></span></span>
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<span class="r-in"><span> <span class="fu">atc_online_ddd</span><span class="op">(</span><span class="fu"><a href="ab_property.html">ab_atc</a></span><span class="op">(</span><span class="st">"amox"</span><span class="op">)</span><span class="op">)</span></span></span>
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<span class="r-in"><span></span></span>
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<span class="r-in"><span> <span class="co"># parenteral DDD (Defined Daily Dose) of amoxicillin</span></span></span>
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<span class="r-in"><span> <span class="fu">atc_online_property</span><span class="op">(</span><span class="st">"J01CA04"</span>, <span class="st">"DDD"</span>, <span class="st">"P"</span><span class="op">)</span></span></span>
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<span class="r-in"><span></span></span>
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<span class="r-in"><span> <span class="fu">atc_online_property</span><span class="op">(</span><span class="st">"J01CA04"</span>, property <span class="op">=</span> <span class="st">"groups"</span><span class="op">)</span> <span class="co"># search hierarchical groups of amoxicillin</span></span></span>
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<span class="r-in"><span><span class="op">}</span></span></span>
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<span class="r-msg co"><span class="r-pr">#></span> Loading required namespace: rvest</span>
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<span class="r-msg co"><span class="r-pr">#></span> <span style="color: #0000BB;">ℹ in </span><span style="color: #0000BB; background-color: #EEEEEE;">atc_online_property()</span><span style="color: #0000BB;">: no properties found for ATC QG51AA03. Please</span></span>
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<span class="r-msg co"><span class="r-pr">#></span> <span style="color: #0000BB;"> check</span></span>
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<span class="r-msg co"><span class="r-pr">#></span> <span style="color: #0000BB;"> https://atcddd.fhi.no/atcvet/atcvet_index/?code=QG51AA03&showdescription=no.</span></span>
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<span class="r-msg co"><span class="r-pr">#></span> <span style="color: #0000BB;">ℹ in </span><span style="color: #0000BB; background-color: #EEEEEE;">atc_online_property()</span><span style="color: #0000BB;">: no properties found for ATC QJ01CA04. Please</span></span>
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<span class="r-msg co"><span class="r-pr">#></span> <span style="color: #0000BB;"> check</span></span>
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<span class="r-msg co"><span class="r-pr">#></span> <span style="color: #0000BB;"> https://atcddd.fhi.no/atcvet/atcvet_index/?code=QJ01CA04&showdescription=no.</span></span>
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<span class="r-out co"><span class="r-pr">#></span> [1] "ANTIINFECTIVES FOR SYSTEMIC USE" </span>
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<span class="r-out co"><span class="r-pr">#></span> [2] "ANTIBACTERIALS FOR SYSTEMIC USE" </span>
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<span class="r-out co"><span class="r-pr">#></span> [3] "BETA-LACTAM ANTIBACTERIALS, PENICILLINS"</span>
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<span class="r-out co"><span class="r-pr">#></span> [4] "Penicillins with extended spectrum" </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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