diff --git a/docs/404.html b/docs/404.html
index ea38f7e..da790df 100644
--- a/docs/404.html
+++ b/docs/404.html
@@ -32,7 +32,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/articles/index.html b/docs/articles/index.html
index 488e462..280856a 100644
--- a/docs/articles/index.html
+++ b/docs/articles/index.html
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/articles/pcadapt.html b/docs/articles/pcadapt.html
index 4da8531..1001ab2 100644
--- a/docs/articles/pcadapt.html
+++ b/docs/articles/pcadapt.html
@@ -33,7 +33,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/articles/pcadapt_files/figure-html/unnamed-chunk-17-1.png b/docs/articles/pcadapt_files/figure-html/unnamed-chunk-17-1.png
index 5512fd7..50487d9 100644
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diff --git a/docs/articles/pcadapt_files/figure-html/unnamed-chunk-20-1.png b/docs/articles/pcadapt_files/figure-html/unnamed-chunk-20-1.png
index c52235c..f13369a 100644
Binary files a/docs/articles/pcadapt_files/figure-html/unnamed-chunk-20-1.png and b/docs/articles/pcadapt_files/figure-html/unnamed-chunk-20-1.png differ
diff --git a/docs/articles/pcadapt_files/figure-html/unnamed-chunk-5-1.png b/docs/articles/pcadapt_files/figure-html/unnamed-chunk-5-1.png
index 99c97c8..5a5d022 100644
Binary files a/docs/articles/pcadapt_files/figure-html/unnamed-chunk-5-1.png and b/docs/articles/pcadapt_files/figure-html/unnamed-chunk-5-1.png differ
diff --git a/docs/articles/pcadapt_files/figure-html/unnamed-chunk-6-1.png b/docs/articles/pcadapt_files/figure-html/unnamed-chunk-6-1.png
index dd97cfe..1928d01 100644
Binary files a/docs/articles/pcadapt_files/figure-html/unnamed-chunk-6-1.png and b/docs/articles/pcadapt_files/figure-html/unnamed-chunk-6-1.png differ
diff --git a/docs/authors.html b/docs/authors.html
index 06e5768..add92b9 100644
--- a/docs/authors.html
+++ b/docs/authors.html
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/index.html b/docs/index.html
index 226ba16..54a22a1 100644
--- a/docs/index.html
+++ b/docs/index.html
@@ -15,7 +15,8 @@
 <meta property="og:description" content="Methods to detect genetic markers involved in biological
     adaptation. pcadapt provides statistical tools for outlier detection based on
     Principal Component Analysis. Implements the method described in (Luu, 2016)
-    &lt;DOI:10.1111/1755-0998.12592&gt;.">
+    &lt;DOI:10.1111/1755-0998.12592&gt; and later revised in (Privé, 2020) 
+    &lt;DOI:10.1093/molbev/msaa053&gt;.">
 <!-- 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>
@@ -36,7 +37,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/news/index.html b/docs/news/index.html
index 5f75f9d..14d292c 100644
--- a/docs/news/index.html
+++ b/docs/news/index.html
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
@@ -50,6 +50,10 @@ <h1 data-toc-skip>Changelog <small></small></h1>
       <small>Source: <a href="https://github.com/bcm-uga/pcadapt/blob/HEAD/NEWS.md" class="external-link"><code>NEWS.md</code></a></small>
     </div>
 
+    <div class="section level2">
+<h2 class="page-header" data-toc-text="4.4" id="pcadapt-44">pcadapt 4.4<a class="anchor" aria-label="anchor" href="#pcadapt-44"></a></h2>
+<ul><li>Now derive a better estimate of the total variance, to get better estimates of the variance explained by each PC, especially when using clumping.</li>
+</ul></div>
     <div class="section level2">
 <h2 class="page-header" data-toc-text="4.0" id="pcadapt-40">pcadapt 4.0<a class="anchor" aria-label="anchor" href="#pcadapt-40"></a></h2>
 <ul><li><p><code><a href="../reference/read.pcadapt.html">read.pcadapt()</a></code> generates <code>bed</code> files instead of <code>pcadapt</code> files.</p></li>
diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml
index a34fd49..cb4a0f6 100644
--- a/docs/pkgdown.yml
+++ b/docs/pkgdown.yml
@@ -3,5 +3,5 @@ pkgdown: 2.0.6
 pkgdown_sha: ~
 articles:
   pcadapt: pcadapt.html
-last_built: 2023-08-29T12:17Z
+last_built: 2024-04-15T13:03Z
 
diff --git a/docs/reference/bed2matrix.html b/docs/reference/bed2matrix.html
index c9ecb39..334d58a 100644
--- a/docs/reference/bed2matrix.html
+++ b/docs/reference/bed2matrix.html
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/get.pc.html b/docs/reference/get.pc.html
index 48ef5b5..29d5080 100644
--- a/docs/reference/get.pc.html
+++ b/docs/reference/get.pc.html
@@ -18,7 +18,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/get.pop.names.html b/docs/reference/get.pop.names.html
index f2b22a7..6b7f2b8 100644
--- a/docs/reference/get.pop.names.html
+++ b/docs/reference/get.pop.names.html
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/get.score.color.html b/docs/reference/get.score.color.html
index f478141..18a390a 100644
--- a/docs/reference/get.score.color.html
+++ b/docs/reference/get.score.color.html
@@ -19,7 +19,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/get_statistics.html b/docs/reference/get_statistics.html
index 70c8d35..bdc5705 100644
--- a/docs/reference/get_statistics.html
+++ b/docs/reference/get_statistics.html
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/hist_plot.html b/docs/reference/hist_plot.html
index 4490e9e..f4e33b5 100644
--- a/docs/reference/hist_plot.html
+++ b/docs/reference/hist_plot.html
@@ -18,7 +18,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/index.html b/docs/reference/index.html
index ab764ac..ae576ef 100644
--- a/docs/reference/index.html
+++ b/docs/reference/index.html
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/manhattan_plot.html b/docs/reference/manhattan_plot.html
index f0a6a78..b982439 100644
--- a/docs/reference/manhattan_plot.html
+++ b/docs/reference/manhattan_plot.html
@@ -18,7 +18,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/pcadapt.html b/docs/reference/pcadapt.html
index 04bfbf4..716a5d4 100644
--- a/docs/reference/pcadapt.html
+++ b/docs/reference/pcadapt.html
@@ -21,7 +21,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/ped2pcadapt.html b/docs/reference/ped2pcadapt.html
index 6e22ecc..6452105 100644
--- a/docs/reference/ped2pcadapt.html
+++ b/docs/reference/ped2pcadapt.html
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/plot.pcadapt.html b/docs/reference/plot.pcadapt.html
index cdc0855..0c334f4 100644
--- a/docs/reference/plot.pcadapt.html
+++ b/docs/reference/plot.pcadapt.html
@@ -28,7 +28,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/print_convert.html b/docs/reference/print_convert.html
index dd4a2ba..1c35743 100644
--- a/docs/reference/print_convert.html
+++ b/docs/reference/print_convert.html
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/qq_plot.html b/docs/reference/qq_plot.html
index 0541e6d..b90dcfe 100644
--- a/docs/reference/qq_plot.html
+++ b/docs/reference/qq_plot.html
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/read.pcadapt.html b/docs/reference/read.pcadapt.html
index e2949d1..59a5a1a 100644
--- a/docs/reference/read.pcadapt.html
+++ b/docs/reference/read.pcadapt.html
@@ -20,7 +20,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/run.pcadapt.html b/docs/reference/run.pcadapt.html
index bab0362..ae5fa0c 100644
--- a/docs/reference/run.pcadapt.html
+++ b/docs/reference/run.pcadapt.html
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/score_plot.html b/docs/reference/score_plot.html
index fa09d8b..69ee074 100644
--- a/docs/reference/score_plot.html
+++ b/docs/reference/score_plot.html
@@ -18,7 +18,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/scree_plot.html b/docs/reference/scree_plot.html
index a6136ff..470f843 100644
--- a/docs/reference/scree_plot.html
+++ b/docs/reference/scree_plot.html
@@ -19,7 +19,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/vcf2pcadapt.html b/docs/reference/vcf2pcadapt.html
index d0f9291..270b36a 100644
--- a/docs/reference/vcf2pcadapt.html
+++ b/docs/reference/vcf2pcadapt.html
@@ -19,7 +19,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/vcf_convert.html b/docs/reference/vcf_convert.html
index 04cdd35..aff3c79 100644
--- a/docs/reference/vcf_convert.html
+++ b/docs/reference/vcf_convert.html
@@ -18,7 +18,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>
 
diff --git a/docs/reference/writeBed.html b/docs/reference/writeBed.html
index 9387c7e..910de09 100644
--- a/docs/reference/writeBed.html
+++ b/docs/reference/writeBed.html
@@ -17,7 +17,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">pcadapt</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.3.5</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">4.4.0</span>
       </span>
     </div>