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(v1.7.1.9055) added EUCAST 3.3 and all LPSN records numbers

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dr. M.S. (Matthijs) Berends
2021-11-29 10:38:38 +01:00
parent 694cf5ba77
commit c8698347cb
26 changed files with 70986 additions and 70827 deletions
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docs/news/index.html
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@ -84,7 +84,7 @@
</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">1.7.1.9054</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9055</span>
</span>
</div>
@ -232,12 +232,12 @@
<small>Source: <a href='https://github.com/msberends/AMR/blob/master/NEWS.md'><code>NEWS.md</code></a></small>
</div>
<div id="amr-1719054" class="section level1">
<h1 class="page-header" data-toc-text="1.7.1.9054">
<a href="#amr-1719054" class="anchor"></a><small> Unreleased </small><code>AMR</code> 1.7.1.9054</h1>
<div id="last-updated-28-november-2021" class="section level2">
<div id="amr-1719055" class="section level1">
<h1 class="page-header" data-toc-text="1.7.1.9055">
<a href="#amr-1719055" class="anchor"></a><small> Unreleased </small><code>AMR</code> 1.7.1.9055</h1>
<div id="last-updated-29-november-2021" class="section level2">
<h2 class="hasAnchor">
<a href="#last-updated-28-november-2021" class="anchor"></a><small>Last updated: 28 November 2021</small>
<a href="#last-updated-29-november-2021" class="anchor"></a><small>Last updated: 29 November 2021</small>
</h2>
<div id="breaking-changes" class="section level3">
<h3 class="hasAnchor">
@ -324,6 +324,7 @@
<code>NA</code> values of the classes <code>&lt;mic&gt;</code>, <code>&lt;disk&gt;</code> and <code>&lt;rsi&gt;</code> are now exported objects of this package, e.g. <code>NA_mic_</code> is an <code>NA</code> of class <code>mic</code> (just like the base R <code>NA_character_</code> is an <code>NA</code> of class <code>character</code>)</li>
<li>The <code><a href="../reference/proportion.html">proportion_df()</a></code>, <code><a href="../reference/count.html">count_df()</a></code> and <code><a href="../reference/proportion.html">rsi_df()</a></code> functions now return with the additional S3 class ‘rsi_df’ so they can be extended by other packages</li>
<li>The <code><a href="../reference/mdro.html">mdro()</a></code> function now returns <code>NA</code> for all rows that have no test results</li>
<li>The <code>species_id</code> column in the <code>microorganisms</code> data set now only contains LPSN record numbers. For this reason, this column is now numeric instead of a character, and <code><a href="../reference/mo_property.html">mo_url()</a></code> has been updated to reflect this change.</li>
</ul>
</div>
<div id="other" class="section level3">