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(v0.8.0.9033) antivirals data set, cleanup
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<title>Data set with 2,000 example isolates — example_isolates • AMR (for R)</title>
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(v0.8.0.9033) antivirals data set, cleanup
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<meta property="og:title" content="Data set with 2,000 example isolates — example_isolates" />
<meta property="og:description" content="A data set containing 2,000 microbial isolates with their full antibiograms. The data set reflects reality and can be used to practice AMR analysis. For examples, please read the tutorial on our website." />
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(v0.9.0.9029) add uti to as.rsi()
2020-02-20 13:19:23 +01:00
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.9.0.9029</span>
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<h1>Data set with 2,000 example isolates</h1>
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<div class="hidden name"><code>example_isolates.Rd</code></div>
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(v0.8.0.9033) antivirals data set, cleanup
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<p>A data set containing 2,000 microbial isolates with their full antibiograms. The data set reflects reality and can be used to practice AMR analysis. For examples, please read <a href='https://msberends.gitlab.io/AMR/articles/AMR.html'>the tutorial on our website</a>.</p>
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</div>
<pre class="usage"><span class='no'>example_isolates</span></pre>
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<h2 class="hasAnchor" id="format"><a class="anchor" href="#format"></a>Format</h2>
(v0.8.0.9036) complete documentation rewrite
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<p>A <code><a href='https://rdrr.io/r/base/data.frame.html'>data.frame</a></code> with 2,000 observations and 49 variables:</p><ul>
<li><p><code>date</code><br /> date of receipt at the laboratory</p></li>
<li><p><code>hospital_id</code><br /> ID of the hospital, from A to D</p></li>
<li><p><code>ward_icu</code><br /> logical to determine if ward is an intensive care unit</p></li>
<li><p><code>ward_clinical</code><br /> logical to determine if ward is a regular clinical ward</p></li>
<li><p><code>ward_outpatient</code><br /> logical to determine if ward is an outpatient clinic</p></li>
<li><p><code>age</code><br /> age of the patient</p></li>
<li><p><code>gender</code><br /> gender of the patient</p></li>
<li><p><code>patient_id</code><br /> ID of the patient</p></li>
<li><p><code>mo</code><br /> ID of microorganism created with <code><a href='as.mo.html'>as.mo()</a></code>, see also <a href='microorganisms.html'>microorganisms</a></p></li>
(v0.9.0.9016) Support SNOMED codes
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<li><p><code>PEN:RIF</code><br /> 40 different antibiotics with class <code><a href='as.rsi.html'>rsi</a></code> (see <code><a href='as.rsi.html'>as.rsi()</a></code>); these column names occur in the <a href='antibiotics.html'>antibiotics</a> data set and can be translated with <code><a href='ab_property.html'>ab_name()</a></code></p></li>
(v0.8.0.9036) complete documentation rewrite
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</ul>
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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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(v0.9.0.9026) update documentation
2020-02-17 14:38:01 +01:00
<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>Contents</h2>
<ul class="nav nav-pills nav-stacked">
<li><a href="#format">Format</a></li>
<li><a href="#read-more-on-our-website-">Read more on our website!</a></li>
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(v0.9.0.9013) Support for LOINC codes
2020-01-26 20:38:54 +01:00
<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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<p>Site built with <a href="https://pkgdown.r-lib.org/">pkgdown</a> 1.4.1.</p>
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