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(v1.4.0.9024) is_new_episode()

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dr. M.S. (Matthijs) Berends
2020-11-17 16:57:41 +01:00
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</button>
<span class="navbar-brand">
<a class="navbar-link" href="../index.html">AMR (for R)</a>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9023</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.4.0.9024</span>
</span>
</div>
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<small>Source: <a href='https://github.com/msberends/AMR/blob/master/NEWS.md'><code>NEWS.md</code></a></small>
</div>
<div id="amr-1409023" class="section level1">
<h1 class="page-header" data-toc-text="1.4.0.9023">
<a href="#amr-1409023" class="anchor"></a>AMR 1.4.0.9023<small> Unreleased </small>
<div id="amr-1409024" class="section level1">
<h1 class="page-header" data-toc-text="1.4.0.9024">
<a href="#amr-1409024" class="anchor"></a>AMR 1.4.0.9024<small> Unreleased </small>
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<div id="last-updated-17-november-2020" class="section level2">
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<h3 class="hasAnchor">
<a href="#new" class="anchor"></a>New</h3>
<ul>
<li><p>Function <code><a href="../reference/first_isolate.html">is_new_episode()</a></code> to determine patient episodes which are not necessarily based on microorganisms. It also supports grouped variables with e.g. <code><a href="https://dplyr.tidyverse.org/reference/mutate.html">mutate()</a></code> and <code><a href="https://dplyr.tidyverse.org/reference/summarise.html">summarise()</a></code> of the <code>dplyr</code> package: <code>r example_isolates %&gt;% group_by(hospital_id) %&gt;% summarise(patients = n_distinct(patient_id), n_episodes_365 = sum(is_new_episode(episode_days = 365)), n_episodes_60 = sum(is_new_episode(episode_days = 60)))</code></p></li>
<li>
<p>Functions <code><a href="../reference/mo_property.html">mo_is_gram_negative()</a></code> and <code><a href="../reference/mo_property.html">mo_is_gram_positive()</a></code> as wrappers around <code><a href="../reference/mo_property.html">mo_gramstain()</a></code>. They always return <code>TRUE</code> or <code>FALSE</code> (except when the input is <code>NA</code> or the MO code is <code>UNKNOWN</code>), thus always return <code>FALSE</code> for species outside the taxonomic kingdom of Bacteria. If you have the <code>dplyr</code> package installed, they can even determine the column with microorganisms themselves when used inside <code>dplyr</code> verbs:</p>
<div class="sourceCode" id="cb1"><pre class="downlit">