Built site for AMR: 1.8.2.9099@eef0006

reference/index.html

@@ -10,7 +10,7 @@
     
     <a class="navbar-brand me-2" href="../index.html">AMR (for R)</a>
 
-    <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.8.2.9098</small>
+    <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.8.2.9099</small>
 
     
     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
@@ -32,60 +32,65 @@
     How to
   </a>
   <div class="dropdown-menu" aria-labelledby="dropdown--how-to">
+    <a class="dropdown-item" href="../reference/AMR-options.html">
+      <span class="fa fa-gear"></span>
+       
+      User- Or Team-specific Package Settings
+    </a>
     <a class="dropdown-item" href="../articles/AMR.html">
       <span class="fa fa-directions"></span>
        
-      Conduct AMR analysis
+      Conduct AMR Analysis
     </a>
     <a class="dropdown-item" href="../articles/resistance_predict.html">
       <span class="fa fa-dice"></span>
        
-      Predict antimicrobial resistance
+      Predict Antimicrobial Resistance
     </a>
     <a class="dropdown-item" href="../articles/datasets.html">
       <span class="fa fa-database"></span>
        
-      Data sets for download / own use
+      Data Sets for Download / Own Use
     </a>
     <a class="dropdown-item" href="../articles/PCA.html">
       <span class="fa fa-compress"></span>
        
-      Conduct principal component analysis for AMR
+      Conduct Principal Component Analysis for AMR
     </a>
     <a class="dropdown-item" href="../articles/MDR.html">
       <span class="fa fa-skull-crossbones"></span>
        
-      Determine multi-drug resistance (MDR)
+      Determine Multi-Drug Resistance (MDR)
     </a>
     <a class="dropdown-item" href="../articles/WHONET.html">
       <span class="fa fa-globe-americas"></span>
        
-      Work with WHONET data
+      Work with WHONET Data
     </a>
     <a class="dropdown-item" href="../articles/SPSS.html">
       <span class="fa fa-file-upload"></span>
        
-      Import data from SPSS/SAS/Stata
+      Import Data From SPSS/SAS/Stata
     </a>
     <a class="dropdown-item" href="../articles/EUCAST.html">
       <span class="fa fa-exchange-alt"></span>
        
-      Apply EUCAST rules
+      Apply Eucast Rules
     </a>
     <a class="dropdown-item" href="../reference/mo_property.html">
       <span class="fa fa-bug"></span>
        
-      Get taxonomy of a microorganism
+      Get Taxonomy of a Microorganism
     </a>
     <a class="dropdown-item" href="../reference/ab_property.html">
       <span class="fa fa-capsules"></span>
        
-      Get properties of an antibiotic drug
+      Get Properties of an Antibiotic Drug
     </a>
     <a class="dropdown-item" href="../reference/av_property.html">
       <span class="fa fa-capsules"></span>
        
-      Get properties of an antiviral drug
+      Get Properties of an Antiviral Drug
     </a>
   </div>
 </li>
@@ -310,6 +315,22 @@
         </dt>
         <dd>Guess Antibiotic Column</dd>
       </dl></div><div class="section level2">
+      <h2 id="other-amr-specific-options">Other: AMR-specific options<a class="anchor" aria-label="anchor" href="#other-amr-specific-options"></a></h2>
+      
+      <p class="section-desc"></p><p>The AMR package is customisable, by providing settings that can be set per user or per team. For example, the default interpretation guideline can be changed from EUCAST to CLSI, or a supported language can be set for the whole team (system-language independent) for antibiotic names in a foreign language.</p>
+
+      
+    </div><div id="" class="section level2">
+      
+      
+      
+
+      <dl><dt>
+          
+          <code><a href="AMR-options.html">AMR-options</a></code> 
+        </dt>
+        <dd>Options for the AMR package</dd>
+      </dl></div><div class="section level2">
       <h2 id="other-antiviral-drugs">Other: antiviral drugs<a class="anchor" aria-label="anchor" href="#other-antiviral-drugs"></a></h2>
       
       <p class="section-desc"></p><p>This package also provides extensive support for antiviral agents, even though it is not the primary scope of this package. Working with data containing information about antiviral drugs was never easier. Use these functions to get valid properties of antiviral drugs from any input or to clean your input. You can even retrieve drug names and doses from clinical text records, using <code><a href="../reference/av_from_text.html">av_from_text()</a></code>.</p>