P281424/AMR
1
0
Fork 0
mirror of https://github.com/msberends/AMR.git synced 2025-07-08 11:51:59 +02:00
Code Releases Activity

(v0.7.1.9092) as.ab() improvements

Browse Source
This commit is contained in:
dr. M.S. (Matthijs) Berends
2019-10-04 15:36:12 +02:00
parent edb599ae0b
commit 8bc4081b03
28 changed files with 176 additions and 71 deletions
Download Patch File Download Diff File Expand all files Collapse all files

12
docs/news/index.html
View File

@ -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">0.7.1.9091</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9092</span>
</span>
</div>
@ -231,11 +231,11 @@
</div>
<div id="amr-0-7-1-9091" class="section level1">
<div id="amr-0-7-1-9092" class="section level1">
<h1 class="page-header">
<a href="#amr-0-7-1-9091" class="anchor"></a>AMR 0.7.1.9091<small> Unreleased </small>
<a href="#amr-0-7-1-9092" class="anchor"></a>AMR 0.7.1.9092<small> Unreleased </small>
</h1>
<p><small>Last updated: 30-Sep-2019</small></p>
<p><small>Last updated: 04-Oct-2019</small></p>
<div id="breaking" class="section level3">
<h3 class="hasAnchor">
<a href="#breaking" class="anchor"></a>Breaking</h3>
@ -336,6 +336,8 @@ Since this is a major change, usage of the old <code>also_single_tested</code> w
<li>Changed most microorganism IDs to improve readability. For example, the old code <code>B_ENTRC_FAE</code> could have been both <em>E. faecalis</em> and <em>E. faecium</em>. Its new code is <code>B_ENTRC_FCLS</code> and <em>E. faecium</em> has become <code>B_ENTRC_FACM</code>. Also, the Latin character æ (ae) is now preserved at the start of each genus and species abbreviation. For example, the old code for <em>Aerococcus urinae</em> was <code>B_ARCCC_NAE</code>. This is now <code>B_AERCC_URIN</code>. <strong>IMPORTANT:</strong> Old microorganism IDs are still supported, but support will be dropped in a future version. Use <code><a href="../reference/as.mo.html">as.mo()</a></code> on your old codes to transform them to the new format. Using functions from the <code>mo_*</code> family (like <code><a href="../reference/mo_property.html">mo_name()</a></code> and <code><a href="../reference/mo_property.html">mo_gramstain()</a></code>) on old codes, will throw a warning.</li>
</ul>
</li>
<li>More intelligent guessing for <code><a href="../reference/as.ab.html">as.ab()</a></code>
</li>
<li>Renamed data set <code>septic_patients</code> to <code>example_isolates</code>
</li>
<li>Function <code><a href="../reference/eucast_rules.html">eucast_rules()</a></code>:
@ -1288,7 +1290,7 @@ Using <code><a href="../reference/as.mo.html">as.mo(..., allow_uncertain = 3)</a
<div id="tocnav">
<h2>Contents</h2>
<ul class="nav nav-pills nav-stacked">
<li><a href="#amr-0-7-1-9091">0.7.1.9091</a></li>
<li><a href="#amr-0-7-1-9092">0.7.1.9092</a></li>
<li><a href="#amr-0-7-1">0.7.1</a></li>
<li><a href="#amr-0-7-0">0.7.0</a></li>
<li><a href="#amr-0-6-1">0.6.1</a></li>