From 6e6cbc36d4cd690c99f9ee2cb9a5e439edcb955c Mon Sep 17 00:00:00 2001
From: Quarto GHA Workflow Runner <quarto-github-actions-publish@example.com>
Date: Wed, 20 Nov 2024 07:57:34 +0000
Subject: [PATCH] Built site for gh-pages

---
 .nojekyll                              |   2 +-
 develop/02_experimental_planning.html  |   2 +-
 develop/04c_preprocessing_nf3112.html  | 108 ++++++++++++-------------
 develop/04c_preprocessing_nf3170.html  |   2 +-
 develop/05a_data_analysis_setup.html   |   2 +-
 develop/05b_count_matrix.html          |   2 +-
 develop/08b_FA_overrepresentation.html | 106 ++++++++++++------------
 develop/index.html                     |  10 +--
 develop/workshop_RNAseq_nov2024.html   |   7 ++
 search.json                            |   2 +-
 sitemap.xml                            |  78 +++++++++---------
 11 files changed, 164 insertions(+), 157 deletions(-)

diff --git a/.nojekyll b/.nojekyll
index 0237c24..b680ad6 100644
--- a/.nojekyll
+++ b/.nojekyll
@@ -1 +1 @@
-d92153c1
\ No newline at end of file
+ba5faf5e
\ No newline at end of file
diff --git a/develop/02_experimental_planning.html b/develop/02_experimental_planning.html
index 7866e98..fe4b3dd 100644
--- a/develop/02_experimental_planning.html
+++ b/develop/02_experimental_planning.html
@@ -190,7 +190,7 @@
     <div>
     <div class="quarto-title-meta-heading">Modified</div>
     <div class="quarto-title-meta-contents">
-      <p class="date-modified">November 18, 2024</p>
+      <p class="date-modified">November 20, 2024</p>
     </div>
   </div>
     
diff --git a/develop/04c_preprocessing_nf3112.html b/develop/04c_preprocessing_nf3112.html
index 3c0396a..4cd945d 100644
--- a/develop/04c_preprocessing_nf3112.html
+++ b/develop/04c_preprocessing_nf3112.html
@@ -321,23 +321,23 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
 <p>The <code>--input</code> parameter points to the <code>samplesheet.csv</code> file that contains all the info regarding our samples. The file looks like this:</p>
 <div class="cell">
 <div class="cell-output-display">
-<div id="rpohzgwxoh" style="padding-left:0px;padding-right:0px;padding-top:10px;padding-bottom:10px;overflow-x:auto;overflow-y:auto;width:auto;height:auto;">
-<style>#rpohzgwxoh table {
+<div id="lnjwhnitpn" style="padding-left:0px;padding-right:0px;padding-top:10px;padding-bottom:10px;overflow-x:auto;overflow-y:auto;width:auto;height:auto;">
+<style>#lnjwhnitpn table {
   font-family: system-ui, 'Segoe UI', Roboto, Helvetica, Arial, sans-serif, 'Apple Color Emoji', 'Segoe UI Emoji', 'Segoe UI Symbol', 'Noto Color Emoji';
   -webkit-font-smoothing: antialiased;
   -moz-osx-font-smoothing: grayscale;
 }
 
-#rpohzgwxoh thead, #rpohzgwxoh tbody, #rpohzgwxoh tfoot, #rpohzgwxoh tr, #rpohzgwxoh td, #rpohzgwxoh th {
+#lnjwhnitpn thead, #lnjwhnitpn tbody, #lnjwhnitpn tfoot, #lnjwhnitpn tr, #lnjwhnitpn td, #lnjwhnitpn th {
   border-style: none;
 }
 
-#rpohzgwxoh p {
+#lnjwhnitpn p {
   margin: 0;
   padding: 0;
 }
 
-#rpohzgwxoh .gt_table {
+#lnjwhnitpn .gt_table {
   display: table;
   border-collapse: collapse;
   line-height: normal;
@@ -363,12 +363,12 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   border-left-color: #D3D3D3;
 }
 
-#rpohzgwxoh .gt_caption {
+#lnjwhnitpn .gt_caption {
   padding-top: 4px;
   padding-bottom: 4px;
 }
 
-#rpohzgwxoh .gt_title {
+#lnjwhnitpn .gt_title {
   color: #333333;
   font-size: 125%;
   font-weight: initial;
@@ -380,7 +380,7 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   border-bottom-width: 0;
 }
 
-#rpohzgwxoh .gt_subtitle {
+#lnjwhnitpn .gt_subtitle {
   color: #333333;
   font-size: 85%;
   font-weight: initial;
@@ -392,7 +392,7 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   border-top-width: 0;
 }
 
-#rpohzgwxoh .gt_heading {
+#lnjwhnitpn .gt_heading {
   background-color: #FFFFFF;
   text-align: center;
   border-bottom-color: #FFFFFF;
@@ -404,13 +404,13 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   border-right-color: #D3D3D3;
 }
 
-#rpohzgwxoh .gt_bottom_border {
+#lnjwhnitpn .gt_bottom_border {
   border-bottom-style: solid;
   border-bottom-width: 2px;
   border-bottom-color: #D3D3D3;
 }
 
-#rpohzgwxoh .gt_col_headings {
+#lnjwhnitpn .gt_col_headings {
   border-top-style: solid;
   border-top-width: 2px;
   border-top-color: #D3D3D3;
@@ -425,7 +425,7 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   border-right-color: #D3D3D3;
 }
 
-#rpohzgwxoh .gt_col_heading {
+#lnjwhnitpn .gt_col_heading {
   color: #333333;
   background-color: #FFFFFF;
   font-size: 100%;
@@ -445,7 +445,7 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   overflow-x: hidden;
 }
 
-#rpohzgwxoh .gt_column_spanner_outer {
+#lnjwhnitpn .gt_column_spanner_outer {
   color: #333333;
   background-color: #FFFFFF;
   font-size: 100%;
@@ -457,15 +457,15 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   padding-right: 4px;
 }
 
-#rpohzgwxoh .gt_column_spanner_outer:first-child {
+#lnjwhnitpn .gt_column_spanner_outer:first-child {
   padding-left: 0;
 }
 
-#rpohzgwxoh .gt_column_spanner_outer:last-child {
+#lnjwhnitpn .gt_column_spanner_outer:last-child {
   padding-right: 0;
 }
 
-#rpohzgwxoh .gt_column_spanner {
+#lnjwhnitpn .gt_column_spanner {
   border-bottom-style: solid;
   border-bottom-width: 2px;
   border-bottom-color: #D3D3D3;
@@ -477,11 +477,11 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   width: 100%;
 }
 
-#rpohzgwxoh .gt_spanner_row {
+#lnjwhnitpn .gt_spanner_row {
   border-bottom-style: hidden;
 }
 
-#rpohzgwxoh .gt_group_heading {
+#lnjwhnitpn .gt_group_heading {
   padding-top: 8px;
   padding-bottom: 8px;
   padding-left: 5px;
@@ -507,7 +507,7 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   text-align: left;
 }
 
-#rpohzgwxoh .gt_empty_group_heading {
+#lnjwhnitpn .gt_empty_group_heading {
   padding: 0.5px;
   color: #333333;
   background-color: #FFFFFF;
@@ -522,15 +522,15 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   vertical-align: middle;
 }
 
-#rpohzgwxoh .gt_from_md > :first-child {
+#lnjwhnitpn .gt_from_md > :first-child {
   margin-top: 0;
 }
 
-#rpohzgwxoh .gt_from_md > :last-child {
+#lnjwhnitpn .gt_from_md > :last-child {
   margin-bottom: 0;
 }
 
-#rpohzgwxoh .gt_row {
+#lnjwhnitpn .gt_row {
   padding-top: 8px;
   padding-bottom: 8px;
   padding-left: 5px;
@@ -549,7 +549,7 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   overflow-x: hidden;
 }
 
-#rpohzgwxoh .gt_stub {
+#lnjwhnitpn .gt_stub {
   color: #333333;
   background-color: #FFFFFF;
   font-size: 100%;
@@ -562,7 +562,7 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   padding-right: 5px;
 }
 
-#rpohzgwxoh .gt_stub_row_group {
+#lnjwhnitpn .gt_stub_row_group {
   color: #333333;
   background-color: #FFFFFF;
   font-size: 100%;
@@ -576,15 +576,15 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   vertical-align: top;
 }
 
-#rpohzgwxoh .gt_row_group_first td {
+#lnjwhnitpn .gt_row_group_first td {
   border-top-width: 2px;
 }
 
-#rpohzgwxoh .gt_row_group_first th {
+#lnjwhnitpn .gt_row_group_first th {
   border-top-width: 2px;
 }
 
-#rpohzgwxoh .gt_summary_row {
+#lnjwhnitpn .gt_summary_row {
   color: #333333;
   background-color: #FFFFFF;
   text-transform: inherit;
@@ -594,16 +594,16 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   padding-right: 5px;
 }
 
-#rpohzgwxoh .gt_first_summary_row {
+#lnjwhnitpn .gt_first_summary_row {
   border-top-style: solid;
   border-top-color: #D3D3D3;
 }
 
-#rpohzgwxoh .gt_first_summary_row.thick {
+#lnjwhnitpn .gt_first_summary_row.thick {
   border-top-width: 2px;
 }
 
-#rpohzgwxoh .gt_last_summary_row {
+#lnjwhnitpn .gt_last_summary_row {
   padding-top: 8px;
   padding-bottom: 8px;
   padding-left: 5px;
@@ -613,7 +613,7 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   border-bottom-color: #D3D3D3;
 }
 
-#rpohzgwxoh .gt_grand_summary_row {
+#lnjwhnitpn .gt_grand_summary_row {
   color: #333333;
   background-color: #FFFFFF;
   text-transform: inherit;
@@ -623,7 +623,7 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   padding-right: 5px;
 }
 
-#rpohzgwxoh .gt_first_grand_summary_row {
+#lnjwhnitpn .gt_first_grand_summary_row {
   padding-top: 8px;
   padding-bottom: 8px;
   padding-left: 5px;
@@ -633,7 +633,7 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   border-top-color: #D3D3D3;
 }
 
-#rpohzgwxoh .gt_last_grand_summary_row_top {
+#lnjwhnitpn .gt_last_grand_summary_row_top {
   padding-top: 8px;
   padding-bottom: 8px;
   padding-left: 5px;
@@ -643,11 +643,11 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   border-bottom-color: #D3D3D3;
 }
 
-#rpohzgwxoh .gt_striped {
+#lnjwhnitpn .gt_striped {
   background-color: rgba(128, 128, 128, 0.05);
 }
 
-#rpohzgwxoh .gt_table_body {
+#lnjwhnitpn .gt_table_body {
   border-top-style: solid;
   border-top-width: 2px;
   border-top-color: #D3D3D3;
@@ -656,7 +656,7 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   border-bottom-color: #D3D3D3;
 }
 
-#rpohzgwxoh .gt_footnotes {
+#lnjwhnitpn .gt_footnotes {
   color: #333333;
   background-color: #FFFFFF;
   border-bottom-style: none;
@@ -670,7 +670,7 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   border-right-color: #D3D3D3;
 }
 
-#rpohzgwxoh .gt_footnote {
+#lnjwhnitpn .gt_footnote {
   margin: 0px;
   font-size: 90%;
   padding-top: 4px;
@@ -679,7 +679,7 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   padding-right: 5px;
 }
 
-#rpohzgwxoh .gt_sourcenotes {
+#lnjwhnitpn .gt_sourcenotes {
   color: #333333;
   background-color: #FFFFFF;
   border-bottom-style: none;
@@ -693,7 +693,7 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   border-right-color: #D3D3D3;
 }
 
-#rpohzgwxoh .gt_sourcenote {
+#lnjwhnitpn .gt_sourcenote {
   font-size: 90%;
   padding-top: 4px;
   padding-bottom: 4px;
@@ -701,63 +701,63 @@ <h2 class="anchored" data-anchor-id="understanding-the-pipeline-options">Underst
   padding-right: 5px;
 }
 
-#rpohzgwxoh .gt_left {
+#lnjwhnitpn .gt_left {
   text-align: left;
 }
 
-#rpohzgwxoh .gt_center {
+#lnjwhnitpn .gt_center {
   text-align: center;
 }
 
-#rpohzgwxoh .gt_right {
+#lnjwhnitpn .gt_right {
   text-align: right;
   font-variant-numeric: tabular-nums;
 }
 
-#rpohzgwxoh .gt_font_normal {
+#lnjwhnitpn .gt_font_normal {
   font-weight: normal;
 }
 
-#rpohzgwxoh .gt_font_bold {
+#lnjwhnitpn .gt_font_bold {
   font-weight: bold;
 }
 
-#rpohzgwxoh .gt_font_italic {
+#lnjwhnitpn .gt_font_italic {
   font-style: italic;
 }
 
-#rpohzgwxoh .gt_super {
+#lnjwhnitpn .gt_super {
   font-size: 65%;
 }
 
-#rpohzgwxoh .gt_footnote_marks {
+#lnjwhnitpn .gt_footnote_marks {
   font-size: 75%;
   vertical-align: 0.4em;
   position: initial;
 }
 
-#rpohzgwxoh .gt_asterisk {
+#lnjwhnitpn .gt_asterisk {
   font-size: 100%;
   vertical-align: 0;
 }
 
-#rpohzgwxoh .gt_indent_1 {
+#lnjwhnitpn .gt_indent_1 {
   text-indent: 5px;
 }
 
-#rpohzgwxoh .gt_indent_2 {
+#lnjwhnitpn .gt_indent_2 {
   text-indent: 10px;
 }
 
-#rpohzgwxoh .gt_indent_3 {
+#lnjwhnitpn .gt_indent_3 {
   text-indent: 15px;
 }
 
-#rpohzgwxoh .gt_indent_4 {
+#lnjwhnitpn .gt_indent_4 {
   text-indent: 20px;
 }
 
-#rpohzgwxoh .gt_indent_5 {
+#lnjwhnitpn .gt_indent_5 {
   text-indent: 25px;
 }
 </style>
@@ -1480,7 +1480,7 @@ <h3 class="anchored" data-anchor-id="downstream-analysis-using-your-results">Dow
 });
 </script>
 </div> <!-- /content -->
-<script>var lightboxQuarto = GLightbox({"openEffect":"zoom","closeEffect":"zoom","loop":false,"descPosition":"bottom","selector":".lightbox"});
+<script>var lightboxQuarto = GLightbox({"openEffect":"zoom","loop":false,"descPosition":"bottom","closeEffect":"zoom","selector":".lightbox"});
 (function() {
   let previousOnload = window.onload;
   window.onload = () => {
diff --git a/develop/04c_preprocessing_nf3170.html b/develop/04c_preprocessing_nf3170.html
index cba0807..4ba8563 100644
--- a/develop/04c_preprocessing_nf3170.html
+++ b/develop/04c_preprocessing_nf3170.html
@@ -1215,7 +1215,7 @@ <h2 class="anchored" data-anchor-id="downstream-analysis-using-your-results">Dow
   </div>
 </nav>
 </div> <!-- /content -->
-<script>var lightboxQuarto = GLightbox({"selector":".lightbox","closeEffect":"zoom","descPosition":"bottom","loop":false,"openEffect":"zoom"});
+<script>var lightboxQuarto = GLightbox({"loop":false,"descPosition":"bottom","closeEffect":"zoom","selector":".lightbox","openEffect":"zoom"});
 (function() {
   let previousOnload = window.onload;
   window.onload = () => {
diff --git a/develop/05a_data_analysis_setup.html b/develop/05a_data_analysis_setup.html
index d9c1f31..d47c409 100644
--- a/develop/05a_data_analysis_setup.html
+++ b/develop/05a_data_analysis_setup.html
@@ -1023,7 +1023,7 @@ <h3 class="anchored" data-anchor-id="reusing-old-job-parameters">Reusing old job
   </div>
 </nav>
 </div> <!-- /content -->
-<script>var lightboxQuarto = GLightbox({"closeEffect":"zoom","selector":".lightbox","descPosition":"bottom","openEffect":"zoom","loop":false});
+<script>var lightboxQuarto = GLightbox({"closeEffect":"zoom","descPosition":"bottom","selector":".lightbox","loop":false,"openEffect":"zoom"});
 (function() {
   let previousOnload = window.onload;
   window.onload = () => {
diff --git a/develop/05b_count_matrix.html b/develop/05b_count_matrix.html
index f1fd2ac..fd055c4 100644
--- a/develop/05b_count_matrix.html
+++ b/develop/05b_count_matrix.html
@@ -1187,7 +1187,7 @@ <h2 class="anchored" data-anchor-id="differential-expression-analysis-workflow">
   </div>
 </nav>
 </div> <!-- /content -->
-<script>var lightboxQuarto = GLightbox({"selector":".lightbox","descPosition":"bottom","openEffect":"zoom","loop":false,"closeEffect":"zoom"});
+<script>var lightboxQuarto = GLightbox({"descPosition":"bottom","selector":".lightbox","closeEffect":"zoom","loop":false,"openEffect":"zoom"});
 (function() {
   let previousOnload = window.onload;
   window.onload = () => {
diff --git a/develop/08b_FA_overrepresentation.html b/develop/08b_FA_overrepresentation.html
index 9a8dd7e..d03ccbc 100644
--- a/develop/08b_FA_overrepresentation.html
+++ b/develop/08b_FA_overrepresentation.html
@@ -556,23 +556,23 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
 <span id="cb4-5"><a href="#cb4-5" aria-hidden="true" tabindex="-1"></a><span class="fu">write.csv</span>(cluster_summary, <span class="st">"../Results/clusterProfiler_Cont-Vamp.csv"</span>)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
 <div class="cell">
 <div class="cell-output-display">
-<div id="hjofseyqse" style="padding-left:0px;padding-right:0px;padding-top:10px;padding-bottom:10px;overflow-x:auto;overflow-y:auto;width:auto;height:auto;">
-<style>#hjofseyqse table {
+<div id="oamxsdaaps" style="padding-left:0px;padding-right:0px;padding-top:10px;padding-bottom:10px;overflow-x:auto;overflow-y:auto;width:auto;height:auto;">
+<style>#oamxsdaaps table {
   font-family: system-ui, 'Segoe UI', Roboto, Helvetica, Arial, sans-serif, 'Apple Color Emoji', 'Segoe UI Emoji', 'Segoe UI Symbol', 'Noto Color Emoji';
   -webkit-font-smoothing: antialiased;
   -moz-osx-font-smoothing: grayscale;
 }
 
-#hjofseyqse thead, #hjofseyqse tbody, #hjofseyqse tfoot, #hjofseyqse tr, #hjofseyqse td, #hjofseyqse th {
+#oamxsdaaps thead, #oamxsdaaps tbody, #oamxsdaaps tfoot, #oamxsdaaps tr, #oamxsdaaps td, #oamxsdaaps th {
   border-style: none;
 }
 
-#hjofseyqse p {
+#oamxsdaaps p {
   margin: 0;
   padding: 0;
 }
 
-#hjofseyqse .gt_table {
+#oamxsdaaps .gt_table {
   display: table;
   border-collapse: collapse;
   line-height: normal;
@@ -598,12 +598,12 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
   border-left-color: #D3D3D3;
 }
 
-#hjofseyqse .gt_caption {
+#oamxsdaaps .gt_caption {
   padding-top: 4px;
   padding-bottom: 4px;
 }
 
-#hjofseyqse .gt_title {
+#oamxsdaaps .gt_title {
   color: #333333;
   font-size: 125%;
   font-weight: initial;
@@ -615,7 +615,7 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
   border-bottom-width: 0;
 }
 
-#hjofseyqse .gt_subtitle {
+#oamxsdaaps .gt_subtitle {
   color: #333333;
   font-size: 85%;
   font-weight: initial;
@@ -627,7 +627,7 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
   border-top-width: 0;
 }
 
-#hjofseyqse .gt_heading {
+#oamxsdaaps .gt_heading {
   background-color: #FFFFFF;
   text-align: center;
   border-bottom-color: #FFFFFF;
@@ -639,13 +639,13 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
   border-right-color: #D3D3D3;
 }
 
-#hjofseyqse .gt_bottom_border {
+#oamxsdaaps .gt_bottom_border {
   border-bottom-style: solid;
   border-bottom-width: 2px;
   border-bottom-color: #D3D3D3;
 }
 
-#hjofseyqse .gt_col_headings {
+#oamxsdaaps .gt_col_headings {
   border-top-style: solid;
   border-top-width: 2px;
   border-top-color: #D3D3D3;
@@ -660,7 +660,7 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
   border-right-color: #D3D3D3;
 }
 
-#hjofseyqse .gt_col_heading {
+#oamxsdaaps .gt_col_heading {
   color: #333333;
   background-color: #FFFFFF;
   font-size: 100%;
@@ -680,7 +680,7 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
   overflow-x: hidden;
 }
 
-#hjofseyqse .gt_column_spanner_outer {
+#oamxsdaaps .gt_column_spanner_outer {
   color: #333333;
   background-color: #FFFFFF;
   font-size: 100%;
@@ -692,15 +692,15 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
   padding-right: 4px;
 }
 
-#hjofseyqse .gt_column_spanner_outer:first-child {
+#oamxsdaaps .gt_column_spanner_outer:first-child {
   padding-left: 0;
 }
 
-#hjofseyqse .gt_column_spanner_outer:last-child {
+#oamxsdaaps .gt_column_spanner_outer:last-child {
   padding-right: 0;
 }
 
-#hjofseyqse .gt_column_spanner {
+#oamxsdaaps .gt_column_spanner {
   border-bottom-style: solid;
   border-bottom-width: 2px;
   border-bottom-color: #D3D3D3;
@@ -712,11 +712,11 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
   width: 100%;
 }
 
-#hjofseyqse .gt_spanner_row {
+#oamxsdaaps .gt_spanner_row {
   border-bottom-style: hidden;
 }
 
-#hjofseyqse .gt_group_heading {
+#oamxsdaaps .gt_group_heading {
   padding-top: 8px;
   padding-bottom: 8px;
   padding-left: 5px;
@@ -742,7 +742,7 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
   text-align: left;
 }
 
-#hjofseyqse .gt_empty_group_heading {
+#oamxsdaaps .gt_empty_group_heading {
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@@ -757,15 +757,15 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
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-#hjofseyqse .gt_from_md > :first-child {
+#oamxsdaaps .gt_from_md > :first-child {
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+#oamxsdaaps .gt_row {
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@@ -784,7 +784,7 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
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-#hjofseyqse .gt_stub {
+#oamxsdaaps .gt_stub {
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-#hjofseyqse .gt_stub_row_group {
+#oamxsdaaps .gt_stub_row_group {
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+#oamxsdaaps .gt_row_group_first td {
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-#hjofseyqse .gt_summary_row {
+#oamxsdaaps .gt_summary_row {
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@@ -829,16 +829,16 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
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-#hjofseyqse .gt_first_summary_row {
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-#hjofseyqse .gt_first_summary_row.thick {
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@@ -848,7 +848,7 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
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 }
 
-#hjofseyqse .gt_grand_summary_row {
+#oamxsdaaps .gt_grand_summary_row {
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@@ -858,7 +858,7 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
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-#hjofseyqse .gt_first_grand_summary_row {
+#oamxsdaaps .gt_first_grand_summary_row {
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@@ -868,7 +868,7 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
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 }
 
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+#oamxsdaaps .gt_last_grand_summary_row_top {
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@@ -878,11 +878,11 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
   border-bottom-color: #D3D3D3;
 }
 
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+#oamxsdaaps .gt_striped {
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+#oamxsdaaps .gt_table_body {
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@@ -891,7 +891,7 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
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 }
 
-#hjofseyqse .gt_footnotes {
+#oamxsdaaps .gt_footnotes {
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+#oamxsdaaps .gt_sourcenotes {
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@@ -928,7 +928,7 @@ <h3 class="anchored" data-anchor-id="running-clusterprofiler">Running clusterPro
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+#oamxsdaaps .gt_sourcenote {
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 }
 
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+#oamxsdaaps .gt_center {
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+#oamxsdaaps .gt_asterisk {
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diff --git a/develop/index.html b/develop/index.html
index f051df8..50532c5 100644
--- a/develop/index.html
+++ b/develop/index.html
@@ -213,7 +213,7 @@
     <div>
     <div class="quarto-title-meta-heading">Modified</div>
     <div class="quarto-title-meta-contents">
-      <p class="date-modified">November 18, 2024</p>
+      <p class="date-modified">November 20, 2024</p>
     </div>
   </div>
     
@@ -383,7 +383,7 @@ <h4>Authors</h4>
 
 <div class="quarto-listing quarto-listing-container-grid" id="listing-listing">
 <div class="list grid quarto-listing-cols-5">
-<div class="g-col-1" data-index="0" data-listing-file-modified-sort="1731923562454" data-listing-reading-time-sort="1" data-listing-word-count-sort="23">
+<div class="g-col-1" data-index="0" data-listing-file-modified-sort="1732089306454" data-listing-reading-time-sort="1" data-listing-word-count-sort="23">
 <a href="../develop/cards/AdrijaKalvisa.html" class="quarto-grid-link">
 <div class="quarto-grid-item card h-100 card-left">
 <p class="card-img-top">
@@ -400,7 +400,7 @@ <h5 class="no-anchor card-title listing-title">
 </div>
 </a>
 </div>
-<div class="g-col-1" data-index="1" data-listing-file-modified-sort="1731923562454" data-listing-reading-time-sort="1" data-listing-word-count-sort="47">
+<div class="g-col-1" data-index="1" data-listing-file-modified-sort="1732089306454" data-listing-reading-time-sort="1" data-listing-word-count-sort="47">
 <a href="../develop/cards/AlbaMartinez.html" class="quarto-grid-link">
 <div class="quarto-grid-item card h-100 card-left">
 <p class="card-img-top"><img src="cards/alba.jpg" style="height: 200px;"  class="thumbnail-image card-img"/></p>
@@ -415,7 +415,7 @@ <h5 class="no-anchor card-title listing-title">
 </div>
 </a>
 </div>
-<div class="g-col-1" data-index="2" data-listing-file-modified-sort="1731923562454" data-listing-reading-time-sort="1" data-listing-word-count-sort="4">
+<div class="g-col-1" data-index="2" data-listing-file-modified-sort="1732089306454" data-listing-reading-time-sort="1" data-listing-word-count-sort="4">
 <a href="../develop/cards/HenrikeZschach.html" class="quarto-grid-link">
 <div class="quarto-grid-item card h-100 card-left">
 <p class="card-img-top"><img src="img/cards/henrike.jpeg" style="height: 200px;"  class="thumbnail-image card-img"/></p>
@@ -430,7 +430,7 @@ <h5 class="no-anchor card-title listing-title">
 </div>
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-<div class="g-col-1" data-index="3" data-listing-file-modified-sort="1731923562458" data-listing-reading-time-sort="1" data-listing-word-count-sort="11">
+<div class="g-col-1" data-index="3" data-listing-file-modified-sort="1732089306458" data-listing-reading-time-sort="1" data-listing-word-count-sort="11">
 <a href="../develop/cards/thildeTerkelsen.html" class="quarto-grid-link">
 <div class="quarto-grid-item card h-100 card-left">
 <p class="card-img-top"><img src="img/cards/thilde.JPG" style="height: 200px;"  class="thumbnail-image card-img"/></p>
diff --git a/develop/workshop_RNAseq_nov2024.html b/develop/workshop_RNAseq_nov2024.html
index 1a63712..f26b17c 100644
--- a/develop/workshop_RNAseq_nov2024.html
+++ b/develop/workshop_RNAseq_nov2024.html
@@ -211,6 +211,13 @@ <h2 class="anchored" data-anchor-id="access-sandbox-resources">Access Sandbox re
 <p><a href="./BulkRNAseq_slides_nov24.zip" download="bulkRNAseq-slides.zip"> <button class="btn-action">Download course slides</button> </a></p>
 </div>
 <p>&nbsp;</p>
+<ol start="6" type="1">
+<li>COURSE EVALUATION SURVEY - The Novo Nordisk Foundation funds the Sandbox project and is interested in the outcomes of our training activities, so we really appreciate your responses!</li>
+</ol>
+<p align="center">
+<a href="https://forms.office.com/e/Hapv2e03aM" style="background-color: #4266A1; color: #FFFFFF; padding: 30px 20px; text-decoration: none; border-radius: 5px;"> Evaluation survey link </a>
+</p>
+<p>&nbsp;</p>
 </section>
 <section id="workshop-agenda" class="level1">
 <h1>Workshop Agenda</h1>
diff --git a/search.json b/search.json
index 6c9e12f..51f4e3e 100644
--- a/search.json
+++ b/search.json
@@ -1669,7 +1669,7 @@
     "href": "develop/workshop_RNAseq_nov2024.html#access-sandbox-resources",
     "title": "Welcome to the bulk RNAseq workshop",
     "section": "Access Sandbox resources",
-    "text": "Access Sandbox resources\nOur first choice is to provide all the training materials, tutorials, and tools as interactive apps on UCloud, the supercomputer located at the University of Southern Denmark. Anyone using these resources needs the following:\n\na Danish university ID so you can sign on to UCloud via WAYF1.\n\n \n\n for UCloud Access click here \n\n \n\nbasic ability to navigate in Linux/RStudio/Jupyter. You don’t need to be an expert, but it is beyond our ambitions (and course material) to teach you how to code from zero and how to run analyses simultaneously. We recommend a basic R or Python course before diving in.\nFor workshop participants: Use our invite link to the correct UCloud workspace that will be shared on the day of the workshop. This way, we can provide you with compute resources for the active sessions of the workshop2 Click the link below after your first uCloud access and accept the invite that shows.\n\n \n\n Invite link to uCloud workspace \n\n \n\nAdditional files needed for exercises from Day 1 - Lecture 2 (QC report files)\n\n\n Download QC files \n\n\nCourse slides\n\n\n Download course slides"
+    "text": "Access Sandbox resources\nOur first choice is to provide all the training materials, tutorials, and tools as interactive apps on UCloud, the supercomputer located at the University of Southern Denmark. Anyone using these resources needs the following:\n\na Danish university ID so you can sign on to UCloud via WAYF1.\n\n \n\n for UCloud Access click here \n\n \n\nbasic ability to navigate in Linux/RStudio/Jupyter. You don’t need to be an expert, but it is beyond our ambitions (and course material) to teach you how to code from zero and how to run analyses simultaneously. We recommend a basic R or Python course before diving in.\nFor workshop participants: Use our invite link to the correct UCloud workspace that will be shared on the day of the workshop. This way, we can provide you with compute resources for the active sessions of the workshop2 Click the link below after your first uCloud access and accept the invite that shows.\n\n \n\n Invite link to uCloud workspace \n\n \n\nAdditional files needed for exercises from Day 1 - Lecture 2 (QC report files)\n\n\n Download QC files \n\n\nCourse slides\n\n\n Download course slides \n\n \n\nCOURSE EVALUATION SURVEY - The Novo Nordisk Foundation funds the Sandbox project and is interested in the outcomes of our training activities, so we really appreciate your responses!\n\n\n Evaluation survey link"
   },
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     "objectID": "develop/workshop_RNAseq_nov2024.html#transcriptomics-apps",
diff --git a/sitemap.xml b/sitemap.xml
index d4f7a97..c069031 100644
--- a/sitemap.xml
+++ b/sitemap.xml
@@ -2,158 +2,158 @@
 <urlset xmlns="http://www.sitemaps.org/schemas/sitemap/0.9">
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/04c_preprocessing_nf3112.html</loc>
-    <lastmod>2024-11-18T09:52:42.418Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.418Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/08b_FA_overrepresentation.html</loc>
-    <lastmod>2024-11-18T09:52:42.418Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.422Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/cards/extraCards/SamueleSoraggi.html</loc>
-    <lastmod>2024-11-18T09:52:42.454Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.458Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/cards/AlbaMartinez.html</loc>
-    <lastmod>2024-11-18T09:52:42.454Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.454Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/cards/thildeTerkelsen.html</loc>
-    <lastmod>2024-11-18T09:52:42.458Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.458Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/04c_preprocessing_nf3170.html</loc>
-    <lastmod>2024-11-18T09:52:42.418Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.418Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/08c_FA_GSEA.html</loc>
-    <lastmod>2024-11-18T09:52:42.418Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.422Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/07b_hypothesis_testing.html</loc>
-    <lastmod>2024-11-18T09:52:42.418Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.422Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/07_extra_contrast_design.html</loc>
-    <lastmod>2024-11-18T09:52:42.418Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.418Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/09_summarized_workflow.html</loc>
-    <lastmod>2024-11-18T09:52:42.418Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.422Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/rmd/05b_count_matrix.html</loc>
-    <lastmod>2024-11-18T09:52:43.042Z</lastmod>
+    <lastmod>2024-11-20T07:55:07.046Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/rmd/05c_count_normalization.html</loc>
-    <lastmod>2024-11-18T09:52:43.042Z</lastmod>
+    <lastmod>2024-11-20T07:55:07.046Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/rmd/08c_FA_GSEA.html</loc>
-    <lastmod>2024-11-18T09:52:43.042Z</lastmod>
+    <lastmod>2024-11-20T07:55:07.046Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/rmd/06_exploratory_analysis.html</loc>
-    <lastmod>2024-11-18T09:52:43.042Z</lastmod>
+    <lastmod>2024-11-20T07:55:07.046Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/rmd/07c_DEA_visualization.html</loc>
-    <lastmod>2024-11-18T09:52:43.042Z</lastmod>
+    <lastmod>2024-11-20T07:55:07.046Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/rmd/08a_FA_genomic_annotation.html</loc>
-    <lastmod>2024-11-18T09:52:43.042Z</lastmod>
+    <lastmod>2024-11-20T07:55:07.046Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/08a_FA_genomic_annotation.html</loc>
-    <lastmod>2024-11-18T09:52:42.418Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.422Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/summary.html</loc>
-    <lastmod>2024-11-18T09:52:43.166Z</lastmod>
+    <lastmod>2024-11-20T07:55:07.170Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/07a_DEA.html</loc>
-    <lastmod>2024-11-18T09:52:42.418Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.422Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/06_exploratory_analysis.html</loc>
-    <lastmod>2024-11-18T09:52:42.418Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.418Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/05a_data_analysis_setup.html</loc>
-    <lastmod>2024-11-18T09:52:42.418Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.418Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/04b_pipelines.html</loc>
-    <lastmod>2024-11-18T09:52:42.418Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.418Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/02_experimental_planning.html</loc>
-    <lastmod>2024-11-18T09:52:42.418Z</lastmod>
+    <lastmod>2024-11-20T07:55:06.418Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/rmd/09_summarized_workflow.html</loc>
-    <lastmod>2024-11-18T09:52:43.042Z</lastmod>
+    <lastmod>2024-11-20T07:55:07.046Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/rmd/08b_FA_overrepresentation.html</loc>
-    <lastmod>2024-11-18T09:52:43.042Z</lastmod>
+    <lastmod>2024-11-20T07:55:07.046Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/rmd/07a_DEA.html</loc>
-    <lastmod>2024-11-18T09:52:43.042Z</lastmod>
+    <lastmod>2024-11-20T07:55:07.046Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/rmd/07b_hypothesis_testing.html</loc>
-    <lastmod>2024-11-18T09:52:43.042Z</lastmod>
+    <lastmod>2024-11-20T07:55:07.046Z</lastmod>
   </url>
   <url>
     <loc>https://hds-sandbox.github.io/bulk_RNAseq_course/develop/rmd/modify_md.html</loc>
-    <lastmod>2024-11-18T09:52:43.166Z</lastmod>
+    <lastmod>2024-11-20T07:55:07.170Z</lastmod>
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