diff --git a/articles/nsti_files/figure-html/unnamed-chunk-5-1.png b/articles/nsti_files/figure-html/unnamed-chunk-5-1.png
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diff --git a/pkgdown.yml b/pkgdown.yml
index 3ac35d6..b24c1bf 100644
--- a/pkgdown.yml
+++ b/pkgdown.yml
@@ -10,7 +10,7 @@ articles:
   uncertainty_binary: uncertainty_binary.html
   uncertainty_multistate: uncertainty_multistate.html
   taxPPro: taxPPro.html
-last_built: 2024-04-03T16:22Z
+last_built: 2024-04-03T21:18Z
 urls:
   reference: https://waldronlab.io/taxPPro/reference
   article: https://waldronlab.io/taxPPro/articles
diff --git a/reference/freq2Scores2.html b/reference/freq2Scores2.html
new file mode 100644
index 0000000..07683f2
--- /dev/null
+++ b/reference/freq2Scores2.html
@@ -0,0 +1,129 @@
+<!DOCTYPE html>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Frequency to scores 2 — freq2Scores2 • taxPPro</title><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/css/bootstrap.min.css" integrity="sha256-bZLfwXAP04zRMK2BjiO8iu9pf4FbLqX6zitd+tIvLhE=" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><meta property="og:title" content="Frequency to scores 2 — freq2Scores2"><meta property="og:description" content='freq2Scores converts the keywords in the "Frequency"
+column of a bugphyzz dataset into numeric scores, which are interpreted
+as probabilities. This v2 should be used after performing ASR in
+numeric attributes.'><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
+<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
+<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
+<![endif]--></head><body data-spy="scroll" data-target="#toc">
+    
+
+    <div class="container template-reference-topic">
+      <header><div class="navbar navbar-default navbar-fixed-top" role="navigation">
+  <div class="container">
+    <div class="navbar-header">
+      <button type="button" class="navbar-toggle collapsed" data-toggle="collapse" data-target="#navbar" aria-expanded="false">
+        <span class="sr-only">Toggle navigation</span>
+        <span class="icon-bar"></span>
+        <span class="icon-bar"></span>
+        <span class="icon-bar"></span>
+      </button>
+      <span class="navbar-brand">
+        <a class="navbar-link" href="../index.html">taxPPro</a>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">0.99.0</span>
+      </span>
+    </div>
+
+    <div id="navbar" class="navbar-collapse collapse">
+      <ul class="nav navbar-nav"><li>
+  <a href="../articles/taxPPro.html">Get started</a>
+</li>
+<li>
+  <a href="../reference/index.html">Reference</a>
+</li>
+<li class="dropdown">
+  <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" data-bs-toggle="dropdown" aria-expanded="false">
+    Articles
+     
+    <span class="caret"></span>
+  </a>
+  <ul class="dropdown-menu" role="menu"><li>
+      <a href="../articles/add_singletons.html">add_singletons</a>
+    </li>
+    <li>
+      <a href="../articles/figure_example.html">Example numeric</a>
+    </li>
+    <li>
+      <a href="../articles/internal_nodes.html">internal_nodes</a>
+    </li>
+    <li>
+      <a href="../articles/nsti.html">weighted Nearest Sequenced Taxon Index (wNSTI)</a>
+    </li>
+    <li>
+      <a href="../articles/smaller_example.html">Examples with a single annotation</a>
+    </li>
+    <li>
+      <a href="../articles/uncertainty_binary.html">Uncertainty in tips with binary attributes</a>
+    </li>
+    <li>
+      <a href="../articles/uncertainty_multistate.html">Uncertainty in tips with multistate(-intersection) annotations</a>
+    </li>
+  </ul></li>
+      </ul><ul class="nav navbar-nav navbar-right"><li>
+  <a href="https://github.com/sdgamboa/taxPPro/" class="external-link">
+    <span class="fab fa-github fa-lg"></span>
+     
+  </a>
+</li>
+      </ul></div><!--/.nav-collapse -->
+  </div><!--/.container -->
+</div><!--/.navbar -->
+
+      
+
+      </header><div class="row">
+  <div class="col-md-9 contents">
+    <div class="page-header">
+    <h1>Frequency to scores 2</h1>
+    <small class="dont-index">Source: <a href="https://github.com/sdgamboa/taxPPro/blob/HEAD/R/utils.R" class="external-link"><code>R/utils.R</code></a></small>
+    <div class="hidden name"><code>freq2Scores2.Rd</code></div>
+    </div>
+
+    <div class="ref-description">
+    <p><code>freq2Scores</code> converts the keywords in the "Frequency"
+column of a bugphyzz dataset into numeric scores, which are interpreted
+as probabilities. This v2 should be used after performing ASR in
+numeric attributes.</p>
+    </div>
+
+    <div id="ref-usage">
+    <div class="sourceCode"><pre class="sourceCode r"><code><span><span class="fu">freq2Scores2</span><span class="op">(</span><span class="va">x</span><span class="op">)</span></span></code></pre></div>
+    </div>
+
+    <div id="arguments">
+    <h2>Arguments</h2>
+    <dl><dt>x</dt>
+<dd><p>A character vector.</p></dd>
+
+</dl></div>
+    <div id="value">
+    <h2>Value</h2>
+    
+
+<p>A numeric vector.</p>
+    </div>
+
+  </div>
+  <div class="col-md-3 hidden-xs hidden-sm" id="pkgdown-sidebar">
+    <nav id="toc" data-toggle="toc" class="sticky-top"><h2 data-toc-skip>Contents</h2>
+    </nav></div>
+</div>
+
+
+      <footer><div class="copyright">
+  <p></p><p>Developed by Samuel Gamboa.</p>
+</div>
+
+<div class="pkgdown">
+  <p></p><p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.7.</p>
+</div>
+
+      </footer></div>
+
+  
+
+
+  
+
+  </body></html>
+
diff --git a/reference/index.html b/reference/index.html
index 1667cd3..8046d65 100644
--- a/reference/index.html
+++ b/reference/index.html
@@ -110,6 +110,10 @@ <h2 id="all-functions">All functions <a href="#all-functions" class="anchor" ari
           <p><code><a href="freq2Scores.html">freq2Scores()</a></code> </p>
         </td>
         <td><p>Frequency to scores</p></td>
+      </tr><tr><td>
+          <p><code><a href="freq2Scores2.html">freq2Scores2()</a></code> </p>
+        </td>
+        <td><p>Frequency to scores 2</p></td>
       </tr><tr><td>
           <p><code><a href="getDataReady.html">getDataReady()</a></code> </p>
         </td>
diff --git a/sitemap.xml b/sitemap.xml
index a286ffe..24fa01f 100644
--- a/sitemap.xml
+++ b/sitemap.xml
@@ -60,6 +60,9 @@
   <url>
     <loc>https://waldronlab.io/taxPPro/reference/freq2Scores.html</loc>
   </url>
+  <url>
+    <loc>https://waldronlab.io/taxPPro/reference/freq2Scores2.html</loc>
+  </url>
   <url>
     <loc>https://waldronlab.io/taxPPro/reference/getDataReady.html</loc>
   </url>
