mirror of
https://github.com/msberends/AMR.git
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(v1.7.1.9025) unit tests
This commit is contained in:
@ -92,7 +92,7 @@
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</button>
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<span class="navbar-brand">
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<a class="navbar-link" href="../index.html">AMR (for R)</a>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9024</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">1.7.1.9025</span>
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</span>
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</div>
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@ -222,13 +222,6 @@
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Source Code
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</a>
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</li>
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<li>
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<a href="../survey.html">
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<span class="fa fa-clipboard-list"></span>
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Survey
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</a>
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</li>
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</ul>
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@ -255,109 +248,6 @@
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</colgroup>
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<tbody>
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<tr>
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<th colspan="2">
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<h2 id="section-background-information-on-included-data" class="hasAnchor"><a href="#section-background-information-on-included-data" class="anchor"></a>Background information on included data</h2>
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<p class="section-desc"><p>Some pages about our package and its external sources. Be sure to read our <a href="./../articles/index.html">How To’s</a> for more information about how to work with functions in this package.</p></p>
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</th>
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</tr>
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</tbody><tbody>
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<tr>
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<td>
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<p><code><a href="AMR.html">AMR</a></code> </p>
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</td>
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<td><p>The <code>AMR</code> Package</p></td>
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</tr><tr>
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<td>
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<p><code><a href="example_isolates.html">example_isolates</a></code> </p>
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</td>
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<td><p>Data Set with 2,000 Example Isolates</p></td>
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</tr><tr>
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<td>
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<p><code><a href="microorganisms.html">microorganisms</a></code> </p>
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</td>
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<td><p>Data Set with 70,026 Microorganisms</p></td>
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</tr><tr>
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<td>
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<p><code><a href="microorganisms.codes.html">microorganisms.codes</a></code> </p>
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</td>
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<td><p>Data Set with 5,605 Common Microorganism Codes</p></td>
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</tr><tr>
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<td>
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<p><code><a href="microorganisms.old.html">microorganisms.old</a></code> </p>
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</td>
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<td><p>Data Set with Previously Accepted Taxonomic Names</p></td>
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</tr><tr>
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<td>
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<p><code><a href="antibiotics.html">antibiotics</a></code> <code><a href="antibiotics.html">antivirals</a></code> </p>
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</td>
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<td><p>Data Sets with 558 Antimicrobials</p></td>
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</tr><tr>
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<td>
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<p><code><a href="intrinsic_resistant.html">intrinsic_resistant</a></code> </p>
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</td>
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<td><p>Data Set with Bacterial Intrinsic Resistance</p></td>
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</tr><tr>
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<td>
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<p><code><a href="dosage.html">dosage</a></code> </p>
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</td>
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<td><p>Data Set with Treatment Dosages as Defined by EUCAST</p></td>
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</tr><tr>
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<td>
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<p><code><a href="catalogue_of_life.html">catalogue_of_life</a></code> </p>
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</td>
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<td><p>The Catalogue of Life</p></td>
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</tr><tr>
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<td>
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<p><code><a href="catalogue_of_life_version.html">catalogue_of_life_version()</a></code> </p>
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</td>
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<td><p>Version info of included Catalogue of Life</p></td>
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</tr><tr>
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<td>
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<p><code><a href="WHOCC.html">WHOCC</a></code> </p>
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</td>
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<td><p>WHOCC: WHO Collaborating Centre for Drug Statistics Methodology</p></td>
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</tr><tr>
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<td>
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<p><code><a href="lifecycle.html">lifecycle</a></code> </p>
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</td>
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<td><p>Lifecycles of Functions in the <code>AMR</code> Package</p></td>
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</tr><tr>
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<td>
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<p><code><a href="example_isolates_unclean.html">example_isolates_unclean</a></code> </p>
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</td>
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<td><p>Data Set with Unclean Data</p></td>
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</tr><tr>
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<td>
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<p><code><a href="rsi_translation.html">rsi_translation</a></code> </p>
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</td>
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<td><p>Data Set for R/SI Interpretation</p></td>
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</tr><tr>
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<td>
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<p><code><a href="WHONET.html">WHONET</a></code> </p>
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</td>
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<td><p>Data Set with 500 Isolates - WHONET Example</p></td>
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</tr>
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</tbody><tbody>
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<tr>
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<th colspan="2">
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<h2 id="section-preparing-data-microorganisms" class="hasAnchor"><a href="#section-preparing-data-microorganisms" class="anchor"></a>Preparing data: microorganisms</h2>
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@ -553,6 +443,109 @@
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</td>
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<td><p>Guess Antibiotic Column</p></td>
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</tr>
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</tbody><tbody>
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<tr>
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<th colspan="2">
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<h2 id="section-background-information-on-included-data" class="hasAnchor"><a href="#section-background-information-on-included-data" class="anchor"></a>Background information on included data</h2>
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<p class="section-desc"><p>Some pages about our package and its external sources. Be sure to read our <a href="./../articles/index.html">How To’s</a> for more information about how to work with functions in this package.</p></p>
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</th>
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</tr>
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</tbody><tbody>
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<tr>
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<td>
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<p><code><a href="AMR.html">AMR</a></code> </p>
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</td>
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<td><p>The <code>AMR</code> Package</p></td>
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</tr><tr>
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<td>
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<p><code><a href="example_isolates.html">example_isolates</a></code> </p>
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</td>
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<td><p>Data Set with 2,000 Example Isolates</p></td>
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</tr><tr>
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<td>
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<p><code><a href="microorganisms.html">microorganisms</a></code> </p>
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</td>
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<td><p>Data Set with 70,026 Microorganisms</p></td>
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</tr><tr>
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<td>
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<p><code><a href="microorganisms.codes.html">microorganisms.codes</a></code> </p>
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</td>
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<td><p>Data Set with 5,605 Common Microorganism Codes</p></td>
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</tr><tr>
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<td>
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<p><code><a href="microorganisms.old.html">microorganisms.old</a></code> </p>
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</td>
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<td><p>Data Set with Previously Accepted Taxonomic Names</p></td>
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</tr><tr>
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<td>
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<p><code><a href="antibiotics.html">antibiotics</a></code> <code><a href="antibiotics.html">antivirals</a></code> </p>
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</td>
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<td><p>Data Sets with 558 Antimicrobials</p></td>
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</tr><tr>
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<td>
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<p><code><a href="intrinsic_resistant.html">intrinsic_resistant</a></code> </p>
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</td>
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<td><p>Data Set with Bacterial Intrinsic Resistance</p></td>
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</tr><tr>
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<td>
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<p><code><a href="dosage.html">dosage</a></code> </p>
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</td>
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<td><p>Data Set with Treatment Dosages as Defined by EUCAST</p></td>
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</tr><tr>
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<td>
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<p><code><a href="catalogue_of_life.html">catalogue_of_life</a></code> </p>
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</td>
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<td><p>The Catalogue of Life</p></td>
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</tr><tr>
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<td>
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<p><code><a href="catalogue_of_life_version.html">catalogue_of_life_version()</a></code> </p>
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</td>
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<td><p>Version info of included Catalogue of Life</p></td>
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</tr><tr>
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<td>
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<p><code><a href="WHOCC.html">WHOCC</a></code> </p>
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</td>
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<td><p>WHOCC: WHO Collaborating Centre for Drug Statistics Methodology</p></td>
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</tr><tr>
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<td>
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<p><code><a href="lifecycle.html">lifecycle</a></code> </p>
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</td>
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<td><p>Lifecycles of Functions in the <code>AMR</code> Package</p></td>
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</tr><tr>
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<td>
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<p><code><a href="example_isolates_unclean.html">example_isolates_unclean</a></code> </p>
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</td>
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<td><p>Data Set with Unclean Data</p></td>
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</tr><tr>
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<td>
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<p><code><a href="rsi_translation.html">rsi_translation</a></code> </p>
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</td>
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<td><p>Data Set for R/SI Interpretation</p></td>
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</tr><tr>
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<td>
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<p><code><a href="WHONET.html">WHONET</a></code> </p>
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</td>
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<td><p>Data Set with 500 Isolates - WHONET Example</p></td>
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</tr>
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</tbody><tbody>
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<tr>
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<th colspan="2">
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@ -678,7 +671,7 @@
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<tr>
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<td>
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<p><code><a href="AMR-deprecated.html">p_symbol()</a></code> </p>
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<p><code><a href="AMR-deprecated.html">AMR-deprecated</a></code> </p>
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</td>
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<td><p>Deprecated Functions</p></td>
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</tr>
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