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Get Properties of an Antibiotic Drug
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<img src="../logo.svg" class="logo" alt=""><h1>Get Properties of an Antiviral Drug</h1>
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<small class="dont-index">Source: <a href="https://github.com/msberends/AMR/blob/HEAD/R/av_property.R" class="external-link"><code>R/av_property.R</code></a></small>
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<div class="d-none name"><code>av_property.Rd</code></div>
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</div>
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<div class="ref-description section level2">
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<p>Use these functions to return a specific property of an antiviral drug from the <a href="antibiotics.html">antivirals</a> data set. All input values will be evaluated internally with <code><a href="as.av.html">as.av()</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="fu">av_name</span><span class="op">(</span><span class="va">x</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_AMR_locale</a></span><span class="op">(</span><span class="op">)</span>, tolower <span class="op">=</span> <span class="cn">FALSE</span>, <span class="va">...</span><span class="op">)</span></span>
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<span></span>
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<span><span class="fu">av_cid</span><span class="op">(</span><span class="va">x</span>, <span class="va">...</span><span class="op">)</span></span>
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<span></span>
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<span><span class="fu">av_synonyms</span><span class="op">(</span><span class="va">x</span>, <span class="va">...</span><span class="op">)</span></span>
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<span></span>
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<span><span class="fu">av_tradenames</span><span class="op">(</span><span class="va">x</span>, <span class="va">...</span><span class="op">)</span></span>
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<span></span>
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<span><span class="fu">av_group</span><span class="op">(</span><span class="va">x</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_AMR_locale</a></span><span class="op">(</span><span class="op">)</span>, <span class="va">...</span><span class="op">)</span></span>
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<span></span>
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<span><span class="fu">av_atc</span><span class="op">(</span><span class="va">x</span>, <span class="va">...</span><span class="op">)</span></span>
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<span></span>
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<span><span class="fu">av_loinc</span><span class="op">(</span><span class="va">x</span>, <span class="va">...</span><span class="op">)</span></span>
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<span></span>
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<span><span class="fu">av_ddd</span><span class="op">(</span><span class="va">x</span>, administration <span class="op">=</span> <span class="st">"oral"</span>, <span class="va">...</span><span class="op">)</span></span>
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<span></span>
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<span><span class="fu">av_ddd_units</span><span class="op">(</span><span class="va">x</span>, administration <span class="op">=</span> <span class="st">"oral"</span>, <span class="va">...</span><span class="op">)</span></span>
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<span></span>
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<span><span class="fu">av_info</span><span class="op">(</span><span class="va">x</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_AMR_locale</a></span><span class="op">(</span><span class="op">)</span>, <span class="va">...</span><span class="op">)</span></span>
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<span></span>
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<span><span class="fu">av_url</span><span class="op">(</span><span class="va">x</span>, open <span class="op">=</span> <span class="cn">FALSE</span>, <span class="va">...</span><span class="op">)</span></span>
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<span></span>
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<span><span class="fu">av_property</span><span class="op">(</span><span class="va">x</span>, property <span class="op">=</span> <span class="st">"name"</span>, language <span class="op">=</span> <span class="fu"><a href="translate.html">get_AMR_locale</a></span><span class="op">(</span><span class="op">)</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="arguments">Arguments<a class="anchor" aria-label="anchor" href="#arguments"></a></h2>
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<dl><dt>x</dt>
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<dd><p>any (vector of) text that can be coerced to a valid antiviral drug code with <code><a href="as.av.html">as.av()</a></code></p></dd>
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<dt>language</dt>
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<dd><p>language of the returned text - the default is system language (see <code><a href="translate.html">get_AMR_locale()</a></code>) and can also be set with the <a href="AMR-options.html">package option</a> <code><a href="AMR-options.html">AMR_locale</a></code>. Use <code>language = NULL</code> or <code>language = ""</code> to prevent translation.</p></dd>
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<dt>tolower</dt>
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<dd><p>a <a href="https://rdrr.io/r/base/logical.html" class="external-link">logical</a> to indicate whether the first <a href="https://rdrr.io/r/base/character.html" class="external-link">character</a> of every output should be transformed to a lower case <a href="https://rdrr.io/r/base/character.html" class="external-link">character</a>.</p></dd>
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<dt>...</dt>
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<dd><p>other arguments passed on to <code><a href="as.av.html">as.av()</a></code></p></dd>
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<dt>administration</dt>
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<dd><p>way of administration, either <code>"oral"</code> or <code>"iv"</code></p></dd>
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<dt>open</dt>
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<dd><p>browse the URL using <code><a href="https://rdrr.io/r/utils/browseURL.html" class="external-link">utils::browseURL()</a></code></p></dd>
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<dt>property</dt>
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<dd><p>one of the column names of one of the <a href="antibiotics.html">antivirals</a> data set: <code>vector_or(colnames(antivirals), sort = FALSE)</code>.</p></dd>
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</dl></div>
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<div class="section level2">
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<h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2>
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<ul><li><p>An <a href="https://rdrr.io/r/base/integer.html" class="external-link">integer</a> in case of <code>av_cid()</code></p></li>
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<li><p>A named <a href="https://rdrr.io/r/base/list.html" class="external-link">list</a> in case of <code>av_info()</code> and multiple <code>av_atc()</code>/<code>av_synonyms()</code>/<code>av_tradenames()</code></p></li>
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<li><p>A <a href="https://rdrr.io/r/base/double.html" class="external-link">double</a> in case of <code>av_ddd()</code></p></li>
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<li><p>A <a href="https://rdrr.io/r/base/character.html" class="external-link">character</a> in all other cases</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>All output <a href="translate.html">will be translated</a> where possible.</p>
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<p>The function <code>av_url()</code> will return the direct URL to the official WHO website. A warning will be returned if the required ATC code is not available.</p>
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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>World Health Organization (WHO) Collaborating Centre for Drug Statistics Methodology: <a href="https://atcddd.fhi.no/atc_ddd_index/" class="external-link">https://atcddd.fhi.no/atc_ddd_index/</a></p>
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<p>European Commission Public Health PHARMACEUTICALS - COMMUNITY REGISTER: <a href="https://ec.europa.eu/health/documents/community-register/html/reg_hum_atc.htm" class="external-link">https://ec.europa.eu/health/documents/community-register/html/reg_hum_atc.htm</a></p>
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</div>
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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 data sets in this <code>AMR</code> package (about microorganisms, antibiotics, SIR interpretation, EUCAST rules, etc.) are publicly and freely available for download in the following formats: R, MS Excel, Apache Feather, Apache Parquet, SPSS, SAS, and Stata. We also provide tab-separated plain text files that are machine-readable and suitable for input in any software program, such as laboratory information systems. Please visit <a href="https://msberends.github.io/AMR/articles/datasets.html">our website for the download links</a>. The actual files are of course available on <a href="https://github.com/msberends/AMR/tree/main/data-raw" class="external-link">our GitHub repository</a>.</p>
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</div>
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<div class="section level2">
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<h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"></a></h2>
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<div class="dont-index"><p><a href="antibiotics.html">antivirals</a></p></div>
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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"># all properties:</span></span></span>
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<span class="r-in"><span><span class="fu">av_name</span><span class="op">(</span><span class="st">"ACI"</span><span class="op">)</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> [1] "Aciclovir"</span>
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<span class="r-in"><span><span class="fu">av_atc</span><span class="op">(</span><span class="st">"ACI"</span><span class="op">)</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> [1] "J05AB01"</span>
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<span class="r-in"><span><span class="fu">av_cid</span><span class="op">(</span><span class="st">"ACI"</span><span class="op">)</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> [1] 135398513</span>
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<span class="r-in"><span><span class="fu">av_synonyms</span><span class="op">(</span><span class="st">"ACI"</span><span class="op">)</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> [1] "acicloftal" "aciclovier" "aciclovirum" </span>
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<span class="r-out co"><span class="r-pr">#></span> [4] "activir" "acyclofoam" "acycloguanosine" </span>
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<span class="r-out co"><span class="r-pr">#></span> [7] "acyclovir" "acyclovir lauriad" "avaclyr" </span>
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<span class="r-out co"><span class="r-pr">#></span> [10] "cargosil" "cyclovir" "genvir" </span>
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<span class="r-out co"><span class="r-pr">#></span> [13] "gerpevir" "hascovir" "maynar" </span>
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<span class="r-out co"><span class="r-pr">#></span> [16] "novirus" "poviral" "sitavig" </span>
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<span class="r-out co"><span class="r-pr">#></span> [19] "sitavir" "vipral" "viropump" </span>
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<span class="r-out co"><span class="r-pr">#></span> [22] "virorax" "zovirax" "zyclir" </span>
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<span class="r-in"><span><span class="fu">av_tradenames</span><span class="op">(</span><span class="st">"ACI"</span><span class="op">)</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> [1] "acicloftal" "aciclovier" "aciclovirum" </span>
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<span class="r-out co"><span class="r-pr">#></span> [4] "activir" "acyclofoam" "acycloguanosine" </span>
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<span class="r-out co"><span class="r-pr">#></span> [7] "acyclovir" "acyclovir lauriad" "avaclyr" </span>
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|
<span class="r-out co"><span class="r-pr">#></span> [10] "cargosil" "cyclovir" "genvir" </span>
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|
<span class="r-out co"><span class="r-pr">#></span> [13] "gerpevir" "hascovir" "maynar" </span>
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|
<span class="r-out co"><span class="r-pr">#></span> [16] "novirus" "poviral" "sitavig" </span>
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|
<span class="r-out co"><span class="r-pr">#></span> [19] "sitavir" "vipral" "viropump" </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [22] "virorax" "zovirax" "zyclir" </span>
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<span class="r-in"><span><span class="fu">av_group</span><span class="op">(</span><span class="st">"ACI"</span><span class="op">)</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> [1] "Nucleosides and nucleotides excl. reverse transcriptase inhibitors"</span>
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<span class="r-in"><span><span class="fu">av_url</span><span class="op">(</span><span class="st">"ACI"</span><span class="op">)</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> Aciclovir </span>
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<span class="r-out co"><span class="r-pr">#></span> "https://atcddd.fhi.no/atc_ddd_index/?code=J05AB01&showdescription=no" </span>
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<span class="r-in"><span></span></span>
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<span class="r-in"><span><span class="co"># lowercase transformation</span></span></span>
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<span class="r-in"><span><span class="fu">av_name</span><span class="op">(</span>x <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"ACI"</span>, <span class="st">"VALA"</span><span class="op">)</span><span class="op">)</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> [1] "Aciclovir" "Valaciclovir"</span>
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<span class="r-in"><span><span class="fu">av_name</span><span class="op">(</span>x <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"ACI"</span>, <span class="st">"VALA"</span><span class="op">)</span>, tolower <span class="op">=</span> <span class="cn">TRUE</span><span class="op">)</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> [1] "aciclovir" "valaciclovir"</span>
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<span class="r-in"><span></span></span>
|
|
<span class="r-in"><span><span class="co"># defined daily doses (DDD)</span></span></span>
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<span class="r-in"><span><span class="fu">av_ddd</span><span class="op">(</span><span class="st">"ACI"</span>, <span class="st">"oral"</span><span class="op">)</span></span></span>
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|
<span class="r-out co"><span class="r-pr">#></span> [1] 4</span>
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<span class="r-in"><span><span class="fu">av_ddd_units</span><span class="op">(</span><span class="st">"ACI"</span>, <span class="st">"oral"</span><span class="op">)</span></span></span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] "g"</span>
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|
<span class="r-in"><span><span class="fu">av_ddd</span><span class="op">(</span><span class="st">"ACI"</span>, <span class="st">"iv"</span><span class="op">)</span></span></span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] 4</span>
|
|
<span class="r-in"><span><span class="fu">av_ddd_units</span><span class="op">(</span><span class="st">"ACI"</span>, <span class="st">"iv"</span><span class="op">)</span></span></span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] "g"</span>
|
|
<span class="r-in"><span></span></span>
|
|
<span class="r-in"><span><span class="fu">av_info</span><span class="op">(</span><span class="st">"ACI"</span><span class="op">)</span> <span class="co"># all properties as a list</span></span></span>
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<span class="r-out co"><span class="r-pr">#></span> $av</span>
|
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<span class="r-out co"><span class="r-pr">#></span> [1] "ACI"</span>
|
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<span class="r-out co"><span class="r-pr">#></span> </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> $cid</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] 135398513</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> $name</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] "Aciclovir"</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> $group</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] "Nucleosides and nucleotides excl. reverse transcriptase inhibitors"</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> $atc</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] "J05AB01"</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> $tradenames</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] "acicloftal" "aciclovier" "aciclovirum" </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [4] "activir" "acyclofoam" "acycloguanosine" </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [7] "acyclovir" "acyclovir lauriad" "avaclyr" </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [10] "cargosil" "cyclovir" "genvir" </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [13] "gerpevir" "hascovir" "maynar" </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [16] "novirus" "poviral" "sitavig" </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [19] "sitavir" "vipral" "viropump" </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [22] "virorax" "zovirax" "zyclir" </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> $loinc</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] ""</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> $ddd</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> $ddd$oral</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> $ddd$oral$amount</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] 4</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> $ddd$oral$units</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] "g"</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> $ddd$iv</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> $ddd$iv$amount</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] 4</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> $ddd$iv$units</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] "g"</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> </span>
|
|
<span class="r-out co"><span class="r-pr">#></span> </span>
|
|
<span class="r-in"><span></span></span>
|
|
<span class="r-in"><span><span class="co"># all av_* functions use as.av() internally, so you can go from 'any' to 'any':</span></span></span>
|
|
<span class="r-in"><span><span class="fu">av_atc</span><span class="op">(</span><span class="st">"ACI"</span><span class="op">)</span></span></span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] "J05AB01"</span>
|
|
<span class="r-in"><span><span class="fu">av_group</span><span class="op">(</span><span class="st">"J05AB01"</span><span class="op">)</span></span></span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] "Nucleosides and nucleotides excl. reverse transcriptase inhibitors"</span>
|
|
<span class="r-in"><span><span class="fu">av_loinc</span><span class="op">(</span><span class="st">"abacavir"</span><span class="op">)</span></span></span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] "29113-8" "30273-7" "30287-7" "30303-2" "78772-1" "78773-9" "79134-3"</span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [8] "80118-3"</span>
|
|
<span class="r-in"><span><span class="fu">av_name</span><span class="op">(</span><span class="st">"29113-8"</span><span class="op">)</span></span></span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] "Abacavir"</span>
|
|
<span class="r-in"><span><span class="fu">av_name</span><span class="op">(</span><span class="fl">135398513</span><span class="op">)</span></span></span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] "Aciclovir"</span>
|
|
<span class="r-in"><span><span class="fu">av_name</span><span class="op">(</span><span class="st">"J05AB01"</span><span class="op">)</span></span></span>
|
|
<span class="r-out co"><span class="r-pr">#></span> [1] "Aciclovir"</span>
|
|
</code></pre></div>
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</div>
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<p></p><p><code>AMR</code> (for R). Free and open-source, licenced under the <a target="_blank" href="https://github.com/msberends/AMR/blob/main/LICENSE" class="external-link">GNU General Public License version 2.0 (GPL-2)</a>.<br>Developed at the <a target="_blank" href="https://www.rug.nl" class="external-link">University of Groningen</a> and <a target="_blank" href="https://www.umcg.nl" class="external-link">University Medical Center Groningen</a> in The Netherlands.</p>
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