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Code Releases Activity

(v0.7.1.9075) new microorganism codes

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dr. M.S. (Matthijs) Berends
2019-09-18 15:46:09 +02:00
parent f553a08a7b
commit e2aa4f996b
53 changed files with 636 additions and 475 deletions
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docs/news/index.html
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@ -78,7 +78,7 @@
</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">0.7.1.9074</span>
<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9075</span>
</span>
</div>
@ -225,11 +225,11 @@
</div>
<div id="amr-0-7-1-9074" class="section level1">
<div id="amr-0-7-1-9075" class="section level1">
<h1 class="page-header">
<a href="#amr-0-7-1-9074" class="anchor"></a>AMR 0.7.1.9074<small> Unreleased </small>
<a href="#amr-0-7-1-9075" class="anchor"></a>AMR 0.7.1.9075<small> Unreleased </small>
</h1>
<p><small>Last updated: 16-Sep-2019</small></p>
<p><small>Last updated: 18-Sep-2019</small></p>
<div id="breaking" class="section level3">
<h3 class="hasAnchor">
<a href="#breaking" class="anchor"></a>Breaking</h3>
@ -305,7 +305,7 @@ Since this is a major change, usage of the old <code>also_single_tested</code> w
<h3 class="hasAnchor">
<a href="#changed" class="anchor"></a>Changed</h3>
<ul>
<li>Many algorithm improvements for <code><a href="../reference/as.mo.html">as.mo()</a></code> (of which some led to additions to the <code>microorganisms</code> data set):
<li>Many algorithm improvements for <code><a href="../reference/as.mo.html">as.mo()</a></code> (of which some led to additions to the <code>microorganisms</code> data set). Many thanks to all contributors that helped improving the algorithms.
<ul>
<li>Self-learning algorithm - the function now gains experience from previously determined microorganism IDs and learns from it (yielding 80-95% speed improvement for any guess after the first try)</li>
<li>Big improvement for misspelled input</li>
@ -314,6 +314,7 @@ Since this is a major change, usage of the old <code>also_single_tested</code> w
<li>Added support for Viridans Group Streptococci (VGS) and Milleri Group Streptococci (MGS)</li>
<li>Added support for 5,000 new fungi</li>
<li>Added support for unknown yeasts and fungi</li>
<li>Changed most microorganism IDs to improve readability. <strong>IMPORTANT:</strong> Because of these changes, the microorganism IDs have been changed to a slightly different format. 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.</li>
</ul>
</li>
<li>Renamed data set <code>septic_patients</code> to <code>example_isolates</code>
@ -351,7 +352,7 @@ Since this is a major change, usage of the old <code>also_single_tested</code> w
<h4 class="hasAnchor">
<a href="#other" class="anchor"></a>Other</h4>
<ul>
<li>Added Prof Dr Casper Albers as doctoral advisor and Dr Bart Meijer, Dr Dennis Souverein and Annick Lenglet as contributors</li>
<li>Added Prof. Dr. Casper Albers as doctoral advisor and added Dr. Judith Fonville, Eric Hazenberg, Dr. Bart Meijer, Dr. Dennis Souverein and Annick Lenglet as contributors</li>
</ul>
</div>
</div>
@ -1265,7 +1266,7 @@ 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-0-7-1-9074">0.7.1.9074</a></li>
<li><a href="#amr-0-7-1-9075">0.7.1.9075</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>