From 3932d04a20f524be57407e0399195f78c45dc49b Mon Sep 17 00:00:00 2001
From: GitHub Actions <actions@github.com>
Date: Tue, 31 Oct 2023 00:46:37 +0000
Subject: [PATCH] site deploy

Auto-generated via {sandpaper}
Source  : f228713ea400ba2d3c792e5112e56c3545358805
Branch  : md-outputs
Author  : GitHub Actions <actions@github.com>
Time    : 2023-10-31 00:46:17 +0000
Message : markdown source builds

Auto-generated via {sandpaper}
Source  : b7f7838bfdb831f26927065cd4cb4663fa9b4254
Branch  : main
Author  : parkyed <84448128+parkyed@users.noreply.github.com>
Time    : 2023-10-16 21:26:30 +0000
Message : Updating renv.lock changes.

Merge branch 'main' of https://github.com/carpentries-incubator/rna-seq-data-for-ml

# Conflicts:
#	renv/activate.R
---
 404.html                         |  4 ++--
 CODE_OF_CONDUCT.html             |  6 +++---
 LICENSE.html                     |  6 +++---
 aio.html                         | 28 ++++++++++++++--------------
 episode1.html                    |  6 +++---
 episode2.html                    |  8 ++++----
 episode3.html                    | 16 ++++++++--------
 episode4.html                    |  6 +++---
 episode5.html                    |  6 +++---
 episode6.html                    |  6 +++---
 images.html                      |  4 ++--
 index.html                       |  4 ++--
 instructor-notes.html            |  4 ++--
 instructor/404.html              |  4 ++--
 instructor/CODE_OF_CONDUCT.html  |  6 +++---
 instructor/LICENSE.html          |  6 +++---
 instructor/aio.html              | 28 ++++++++++++++--------------
 instructor/episode1.html         |  6 +++---
 instructor/episode2.html         |  8 ++++----
 instructor/episode3.html         | 16 ++++++++--------
 instructor/episode4.html         |  6 +++---
 instructor/episode5.html         |  6 +++---
 instructor/episode6.html         |  6 +++---
 instructor/images.html           |  4 ++--
 instructor/index.html            |  4 ++--
 instructor/instructor-notes.html |  4 ++--
 instructor/key-points.html       |  4 ++--
 instructor/profiles.html         |  4 ++--
 instructor/reference.html        |  6 +++---
 key-points.html                  |  4 ++--
 md5sum.txt                       | 32 ++++++++++++++++----------------
 pkgdown.yml                      |  2 +-
 profiles.html                    |  4 ++--
 reference.html                   |  6 +++---
 34 files changed, 135 insertions(+), 135 deletions(-)

diff --git a/404.html b/404.html
index ce27d67..01f1cc6 100644
--- a/404.html
+++ b/404.html
@@ -319,8 +319,8 @@ <h1>Page not found</h1>
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/404.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/404.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/CODE_OF_CONDUCT.html b/CODE_OF_CONDUCT.html
index 823b36e..a8a6db0 100644
--- a/CODE_OF_CONDUCT.html
+++ b/CODE_OF_CONDUCT.html
@@ -256,7 +256,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Contributor Code of Conduct</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/CODE_OF_CONDUCT.md" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -340,8 +340,8 @@ <h1>Contributor Code of Conduct</h1>
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/CODE_OF_CONDUCT.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/CODE_OF_CONDUCT.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/LICENSE.html b/LICENSE.html
index bcd639a..5748a07 100644
--- a/LICENSE.html
+++ b/LICENSE.html
@@ -256,7 +256,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Licenses</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/LICENSE.md" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -391,8 +391,8 @@ <h1>Licenses</h1>
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/LICENSE.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/LICENSE.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/aio.html b/aio.html
index 1ef57c4..88d87f0 100644
--- a/aio.html
+++ b/aio.html
@@ -306,7 +306,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
         
 <section id="aio-episode1"><p>Content from <a href="episode1.html">Introduction: Machine Learning Ready RNA-Seq Data</a></p>
 <hr>
-<p> Last updated on 2023-10-24 | 
+<p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode1.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
 <div class="text-end">
@@ -577,7 +577,7 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
  -->
 </section></section><section id="aio-episode2"><p>Content from <a href="episode2.html">Data Collection: ArrayExpress</a></p>
 <hr>
-<p> Last updated on 2023-10-24 | 
+<p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode2.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
 <div class="text-end">
@@ -842,7 +842,7 @@ <h4 class="accordion-header" id="headingSolution1">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution1" class="accordion-collapse collapse" data-bs-parent="#accordionSolution1" aria-labelledby="headingSolution1">
+<div id="collapseSolution1" class="accordion-collapse collapse" aria-labelledby="headingSolution1" data-bs-parent="#accordionSolution1">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb4">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -973,7 +973,7 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
 </div>
 </section></section><section id="aio-episode3"><p>Content from <a href="episode3.html">Data Collection: GEO</a></p>
 <hr>
-<p> Last updated on 2023-10-24 | 
+<p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode3.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
 <div class="text-end">
@@ -1221,7 +1221,7 @@ <h4 class="accordion-header" id="headingSolution1">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution1" class="accordion-collapse collapse" data-bs-parent="#accordionSolution1" aria-labelledby="headingSolution1">
+<div id="collapseSolution1" class="accordion-collapse collapse" aria-labelledby="headingSolution1" data-bs-parent="#accordionSolution1">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb9">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -1370,7 +1370,7 @@ <h4 class="accordion-header" id="headingSolution2">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution2" class="accordion-collapse collapse" data-bs-parent="#accordionSolution2" aria-labelledby="headingSolution2">
+<div id="collapseSolution2" class="accordion-collapse collapse" aria-labelledby="headingSolution2" data-bs-parent="#accordionSolution2">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb19">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -1427,7 +1427,7 @@ <h4 class="accordion-header" id="headingSolution3">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution3" class="accordion-collapse collapse" data-bs-parent="#accordionSolution3" aria-labelledby="headingSolution3">
+<div id="collapseSolution3" class="accordion-collapse collapse" aria-labelledby="headingSolution3" data-bs-parent="#accordionSolution3">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb21">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -1484,7 +1484,7 @@ <h4 class="accordion-header" id="headingHint1">
   Give me a hint
   </h4>
 </button>
-<div id="collapseHint1" class="accordion-collapse collapse" data-bs-parent="#accordionHint1" aria-labelledby="headingHint1">
+<div id="collapseHint1" class="accordion-collapse collapse" aria-labelledby="headingHint1" data-bs-parent="#accordionHint1">
 <div class="accordion-body">
 <p>Hint: you’ll need to refer back to the GEO website to understand how
 the data has been processed.</p>
@@ -1499,7 +1499,7 @@ <h4 class="accordion-header" id="headingSolution4">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution4" class="accordion-collapse collapse" data-bs-parent="#accordionSolution4" aria-labelledby="headingSolution4">
+<div id="collapseSolution4" class="accordion-collapse collapse" aria-labelledby="headingSolution4" data-bs-parent="#accordionSolution4">
 <div class="accordion-body">
 <p>The counts data have been normalised and transformed using a variance
 stabilising transformation using the <code>DESeq2</code> R library.</p>
@@ -1537,7 +1537,7 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
 </div>
 </section></section><section id="aio-episode4"><p>Content from <a href="episode4.html">Data Readiness: Data Format and Integrity</a></p>
 <hr>
-<p> Last updated on 2023-10-24 | 
+<p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode4.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
 <div class="text-end">
@@ -2536,7 +2536,7 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
  -->
 </section></section><section id="aio-episode5"><p>Content from <a href="episode5.html">Data Readiness: Technical Noise</a></p>
 <hr>
-<p> Last updated on 2023-10-24 | 
+<p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode5.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
 <div class="text-end">
@@ -3098,7 +3098,7 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
  -->
 </section></section><section id="aio-episode6"><p>Content from <a href="episode6.html">Data Readiness: Distribution and Scale</a></p>
 <hr>
-<p> Last updated on 2023-10-24 | 
+<p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode6.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
 <div class="text-end">
@@ -3673,8 +3673,8 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/aio.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/aio.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/episode1.html b/episode1.html
index 664653e..ed3086c 100644
--- a/episode1.html
+++ b/episode1.html
@@ -269,7 +269,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Introduction: Machine Learning Ready RNA-Seq Data</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode1.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -551,8 +551,8 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/episode1.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/episode1.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/episode2.html b/episode2.html
index a2f9855..a539107 100644
--- a/episode2.html
+++ b/episode2.html
@@ -270,7 +270,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Data Collection: ArrayExpress</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode2.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -486,7 +486,7 @@ <h4 class="accordion-header" id="headingSolution1">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution1" class="accordion-collapse collapse" data-bs-parent="#accordionSolution1" aria-labelledby="headingSolution1">
+<div id="collapseSolution1" class="accordion-collapse collapse" aria-labelledby="headingSolution1" data-bs-parent="#accordionSolution1">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb4">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -671,8 +671,8 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/episode2.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/episode2.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/episode3.html b/episode3.html
index 75b785b..9e27c29 100644
--- a/episode3.html
+++ b/episode3.html
@@ -271,7 +271,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Data Collection: GEO</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode3.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -480,7 +480,7 @@ <h4 class="accordion-header" id="headingSolution1">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution1" class="accordion-collapse collapse" data-bs-parent="#accordionSolution1" aria-labelledby="headingSolution1">
+<div id="collapseSolution1" class="accordion-collapse collapse" aria-labelledby="headingSolution1" data-bs-parent="#accordionSolution1">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb9">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -627,7 +627,7 @@ <h4 class="accordion-header" id="headingSolution2">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution2" class="accordion-collapse collapse" data-bs-parent="#accordionSolution2" aria-labelledby="headingSolution2">
+<div id="collapseSolution2" class="accordion-collapse collapse" aria-labelledby="headingSolution2" data-bs-parent="#accordionSolution2">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb19">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -684,7 +684,7 @@ <h4 class="accordion-header" id="headingSolution3">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution3" class="accordion-collapse collapse" data-bs-parent="#accordionSolution3" aria-labelledby="headingSolution3">
+<div id="collapseSolution3" class="accordion-collapse collapse" aria-labelledby="headingSolution3" data-bs-parent="#accordionSolution3">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb21">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -741,7 +741,7 @@ <h4 class="accordion-header" id="headingHint1">
   Give me a hint
   </h4>
 </button>
-<div id="collapseHint1" class="accordion-collapse collapse" data-bs-parent="#accordionHint1" aria-labelledby="headingHint1">
+<div id="collapseHint1" class="accordion-collapse collapse" aria-labelledby="headingHint1" data-bs-parent="#accordionHint1">
 <div class="accordion-body">
 <p>Hint: you’ll need to refer back to the GEO website to understand how
 the data has been processed.</p>
@@ -756,7 +756,7 @@ <h4 class="accordion-header" id="headingSolution4">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution4" class="accordion-collapse collapse" data-bs-parent="#accordionSolution4" aria-labelledby="headingSolution4">
+<div id="collapseSolution4" class="accordion-collapse collapse" aria-labelledby="headingSolution4" data-bs-parent="#accordionSolution4">
 <div class="accordion-body">
 <p>The counts data have been normalised and transformed using a variance
 stabilising transformation using the <code>DESeq2</code> R library.</p>
@@ -849,8 +849,8 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/episode3.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/episode3.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/episode4.html b/episode4.html
index 7c013a3..61f72dd 100644
--- a/episode4.html
+++ b/episode4.html
@@ -270,7 +270,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Data Readiness: Data Format and Integrity</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode4.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -1250,8 +1250,8 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/episode4.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/episode4.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/episode5.html b/episode5.html
index 1283248..1f5ddd5 100644
--- a/episode5.html
+++ b/episode5.html
@@ -270,7 +270,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Data Readiness: Technical Noise</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode5.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -881,8 +881,8 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/episode5.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/episode5.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/episode6.html b/episode6.html
index 9004af0..1894e8b 100644
--- a/episode6.html
+++ b/episode6.html
@@ -270,7 +270,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Data Readiness: Distribution and Scale</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode6.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -784,8 +784,8 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/episode6.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/episode6.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/images.html b/images.html
index 58882ad..6a3b346 100644
--- a/images.html
+++ b/images.html
@@ -377,8 +377,8 @@ <h3 id="episode5-figure-3">Figure 3</h3>
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/images.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/images.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/index.html b/index.html
index 8295603..80802ca 100644
--- a/index.html
+++ b/index.html
@@ -415,8 +415,8 @@ <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/index.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/index.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor-notes.html b/instructor-notes.html
index 4b1da55..dcddd8f 100644
--- a/instructor-notes.html
+++ b/instructor-notes.html
@@ -361,8 +361,8 @@ <h1>Instructor Notes</h1>
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor-notes.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor-notes.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/404.html b/instructor/404.html
index dbbd736..0a4750e 100644
--- a/instructor/404.html
+++ b/instructor/404.html
@@ -319,8 +319,8 @@ <h1>Page not found</h1>
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/404.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/404.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/CODE_OF_CONDUCT.html b/instructor/CODE_OF_CONDUCT.html
index 15dc1f8..e331246 100644
--- a/instructor/CODE_OF_CONDUCT.html
+++ b/instructor/CODE_OF_CONDUCT.html
@@ -255,7 +255,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Contributor Code of Conduct</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/CODE_OF_CONDUCT.md" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -341,8 +341,8 @@ <h1>Contributor Code of Conduct</h1>
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/CODE_OF_CONDUCT.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/CODE_OF_CONDUCT.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/LICENSE.html b/instructor/LICENSE.html
index 36c814a..8f4b349 100644
--- a/instructor/LICENSE.html
+++ b/instructor/LICENSE.html
@@ -255,7 +255,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Licenses</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/LICENSE.md" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -392,8 +392,8 @@ <h1>Licenses</h1>
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/LICENSE.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/LICENSE.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/aio.html b/instructor/aio.html
index b130c9a..47ed7f8 100644
--- a/instructor/aio.html
+++ b/instructor/aio.html
@@ -304,7 +304,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
         
 <section id="aio-episode1"><p>Content from <a href="episode1.html">Introduction: Machine Learning Ready RNA-Seq Data</a></p>
 <hr>
-<p> Last updated on 2023-10-24 | 
+<p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode1.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
 <p>Estimated time <i aria-hidden="true" data-feather="clock"></i> 11 minutes </p>
@@ -576,7 +576,7 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
  -->
 </section></section><section id="aio-episode2"><p>Content from <a href="episode2.html">Data Collection: ArrayExpress</a></p>
 <hr>
-<p> Last updated on 2023-10-24 | 
+<p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode2.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
 <p>Estimated time <i aria-hidden="true" data-feather="clock"></i> 15 minutes </p>
@@ -842,7 +842,7 @@ <h4 class="accordion-header" id="headingSolution1">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution1" class="accordion-collapse collapse" data-bs-parent="#accordionSolution1" aria-labelledby="headingSolution1">
+<div id="collapseSolution1" class="accordion-collapse collapse" aria-labelledby="headingSolution1" data-bs-parent="#accordionSolution1">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb4">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -973,7 +973,7 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
 </div>
 </section></section><section id="aio-episode3"><p>Content from <a href="episode3.html">Data Collection: GEO</a></p>
 <hr>
-<p> Last updated on 2023-10-24 | 
+<p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode3.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
 <p>Estimated time <i aria-hidden="true" data-feather="clock"></i> 20 minutes </p>
@@ -1222,7 +1222,7 @@ <h4 class="accordion-header" id="headingSolution1">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution1" class="accordion-collapse collapse" data-bs-parent="#accordionSolution1" aria-labelledby="headingSolution1">
+<div id="collapseSolution1" class="accordion-collapse collapse" aria-labelledby="headingSolution1" data-bs-parent="#accordionSolution1">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb9">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -1371,7 +1371,7 @@ <h4 class="accordion-header" id="headingSolution2">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution2" class="accordion-collapse collapse" data-bs-parent="#accordionSolution2" aria-labelledby="headingSolution2">
+<div id="collapseSolution2" class="accordion-collapse collapse" aria-labelledby="headingSolution2" data-bs-parent="#accordionSolution2">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb19">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -1428,7 +1428,7 @@ <h4 class="accordion-header" id="headingSolution3">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution3" class="accordion-collapse collapse" data-bs-parent="#accordionSolution3" aria-labelledby="headingSolution3">
+<div id="collapseSolution3" class="accordion-collapse collapse" aria-labelledby="headingSolution3" data-bs-parent="#accordionSolution3">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb21">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -1485,7 +1485,7 @@ <h4 class="accordion-header" id="headingHint1">
   Give me a hint
   </h4>
 </button>
-<div id="collapseHint1" class="accordion-collapse collapse" data-bs-parent="#accordionHint1" aria-labelledby="headingHint1">
+<div id="collapseHint1" class="accordion-collapse collapse" aria-labelledby="headingHint1" data-bs-parent="#accordionHint1">
 <div class="accordion-body">
 <p>Hint: you’ll need to refer back to the GEO website to understand how
 the data has been processed.</p>
@@ -1500,7 +1500,7 @@ <h4 class="accordion-header" id="headingSolution4">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution4" class="accordion-collapse collapse" data-bs-parent="#accordionSolution4" aria-labelledby="headingSolution4">
+<div id="collapseSolution4" class="accordion-collapse collapse" aria-labelledby="headingSolution4" data-bs-parent="#accordionSolution4">
 <div class="accordion-body">
 <p>The counts data have been normalised and transformed using a variance
 stabilising transformation using the <code>DESeq2</code> R library.</p>
@@ -1538,7 +1538,7 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
 </div>
 </section></section><section id="aio-episode4"><p>Content from <a href="episode4.html">Data Readiness: Data Format and Integrity</a></p>
 <hr>
-<p> Last updated on 2023-10-24 | 
+<p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode4.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
 <p>Estimated time <i aria-hidden="true" data-feather="clock"></i> 50 minutes </p>
@@ -2583,7 +2583,7 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
  -->
 </section></section><section id="aio-episode5"><p>Content from <a href="episode5.html">Data Readiness: Technical Noise</a></p>
 <hr>
-<p> Last updated on 2023-10-24 | 
+<p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode5.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
 <p>Estimated time <i aria-hidden="true" data-feather="clock"></i> 12 minutes </p>
@@ -3146,7 +3146,7 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
  -->
 </section></section><section id="aio-episode6"><p>Content from <a href="episode6.html">Data Readiness: Distribution and Scale</a></p>
 <hr>
-<p> Last updated on 2023-10-24 | 
+<p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode6.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
 <p>Estimated time <i aria-hidden="true" data-feather="clock"></i> 12 minutes </p>
@@ -3722,8 +3722,8 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/aio.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/aio.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/episode1.html b/instructor/episode1.html
index 3090c05..0d9ba88 100644
--- a/instructor/episode1.html
+++ b/instructor/episode1.html
@@ -268,7 +268,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Introduction: Machine Learning Ready RNA-Seq Data</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode1.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -552,8 +552,8 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/episode1.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/episode1.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/episode2.html b/instructor/episode2.html
index 13babc5..6b116d2 100644
--- a/instructor/episode2.html
+++ b/instructor/episode2.html
@@ -269,7 +269,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Data Collection: ArrayExpress</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode2.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -487,7 +487,7 @@ <h4 class="accordion-header" id="headingSolution1">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution1" class="accordion-collapse collapse" data-bs-parent="#accordionSolution1" aria-labelledby="headingSolution1">
+<div id="collapseSolution1" class="accordion-collapse collapse" aria-labelledby="headingSolution1" data-bs-parent="#accordionSolution1">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb4">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -672,8 +672,8 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/episode2.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/episode2.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/episode3.html b/instructor/episode3.html
index 9075503..0816067 100644
--- a/instructor/episode3.html
+++ b/instructor/episode3.html
@@ -270,7 +270,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Data Collection: GEO</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode3.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -481,7 +481,7 @@ <h4 class="accordion-header" id="headingSolution1">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution1" class="accordion-collapse collapse" data-bs-parent="#accordionSolution1" aria-labelledby="headingSolution1">
+<div id="collapseSolution1" class="accordion-collapse collapse" aria-labelledby="headingSolution1" data-bs-parent="#accordionSolution1">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb9">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -628,7 +628,7 @@ <h4 class="accordion-header" id="headingSolution2">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution2" class="accordion-collapse collapse" data-bs-parent="#accordionSolution2" aria-labelledby="headingSolution2">
+<div id="collapseSolution2" class="accordion-collapse collapse" aria-labelledby="headingSolution2" data-bs-parent="#accordionSolution2">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb19">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -685,7 +685,7 @@ <h4 class="accordion-header" id="headingSolution3">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution3" class="accordion-collapse collapse" data-bs-parent="#accordionSolution3" aria-labelledby="headingSolution3">
+<div id="collapseSolution3" class="accordion-collapse collapse" aria-labelledby="headingSolution3" data-bs-parent="#accordionSolution3">
 <div class="accordion-body">
 <div class="codewrapper sourceCode" id="cb21">
 <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i aria-hidden="true" data-feather="chevron-right"></i>
@@ -742,7 +742,7 @@ <h4 class="accordion-header" id="headingHint1">
   Give me a hint
   </h4>
 </button>
-<div id="collapseHint1" class="accordion-collapse collapse" data-bs-parent="#accordionHint1" aria-labelledby="headingHint1">
+<div id="collapseHint1" class="accordion-collapse collapse" aria-labelledby="headingHint1" data-bs-parent="#accordionHint1">
 <div class="accordion-body">
 <p>Hint: you’ll need to refer back to the GEO website to understand how
 the data has been processed.</p>
@@ -757,7 +757,7 @@ <h4 class="accordion-header" id="headingSolution4">
   Show me the solution
   </h4>
 </button>
-<div id="collapseSolution4" class="accordion-collapse collapse" data-bs-parent="#accordionSolution4" aria-labelledby="headingSolution4">
+<div id="collapseSolution4" class="accordion-collapse collapse" aria-labelledby="headingSolution4" data-bs-parent="#accordionSolution4">
 <div class="accordion-body">
 <p>The counts data have been normalised and transformed using a variance
 stabilising transformation using the <code>DESeq2</code> R library.</p>
@@ -850,8 +850,8 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/episode3.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/episode3.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/episode4.html b/instructor/episode4.html
index 48c532d..7ebc7fc 100644
--- a/instructor/episode4.html
+++ b/instructor/episode4.html
@@ -269,7 +269,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Data Readiness: Data Format and Integrity</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode4.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -1290,8 +1290,8 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/episode4.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/episode4.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/episode5.html b/instructor/episode5.html
index e806c7d..8f0c602 100644
--- a/instructor/episode5.html
+++ b/instructor/episode5.html
@@ -269,7 +269,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Data Readiness: Technical Noise</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode5.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -882,8 +882,8 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/episode5.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/episode5.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/episode6.html b/instructor/episode6.html
index f5c928f..a7df5cb 100644
--- a/instructor/episode6.html
+++ b/instructor/episode6.html
@@ -269,7 +269,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Data Readiness: Distribution and Scale</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/episodes/episode6.Rmd" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -785,8 +785,8 @@ <h3 class="callout-title">Keypoints<a class="anchor" aria-label="anchor" href="#
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/episode6.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/episode6.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/images.html b/instructor/images.html
index f0b9050..d5c657b 100644
--- a/instructor/images.html
+++ b/instructor/images.html
@@ -375,8 +375,8 @@ <h3 id="episode5-figure-3">Figure 3</h3>
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/images.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/images.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/index.html b/instructor/index.html
index 0303116..8633e40 100644
--- a/instructor/index.html
+++ b/instructor/index.html
@@ -495,8 +495,8 @@ <h3 class="code-label">R<i aria-hidden="true" data-feather="chevron-left"></i><i
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/index.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/index.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/instructor-notes.html b/instructor/instructor-notes.html
index ae69c6e..4b1fa90 100644
--- a/instructor/instructor-notes.html
+++ b/instructor/instructor-notes.html
@@ -402,8 +402,8 @@ <h3 id="episode4-headingInstructor1">
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/instructor-notes.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/instructor-notes.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/key-points.html b/instructor/key-points.html
index 98e57d6..3f493fc 100644
--- a/instructor/key-points.html
+++ b/instructor/key-points.html
@@ -438,8 +438,8 @@ <h2 class="accordion-header" id="flush-headingTwelve">
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/key-points.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/key-points.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/profiles.html b/instructor/profiles.html
index 594b208..c4a569c 100644
--- a/instructor/profiles.html
+++ b/instructor/profiles.html
@@ -293,8 +293,8 @@ <h1>Learner Profiles</h1>
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/profiles.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/profiles.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/instructor/reference.html b/instructor/reference.html
index acd3d2a..dd5a39b 100644
--- a/instructor/reference.html
+++ b/instructor/reference.html
@@ -255,7 +255,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Reference</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/learners/reference.md" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -334,8 +334,8 @@ <h1>Reference</h1>
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/reference.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/instructor/reference.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/key-points.html b/key-points.html
index 259b8d9..d01dd7f 100644
--- a/key-points.html
+++ b/key-points.html
@@ -440,8 +440,8 @@ <h2 class="accordion-header" id="flush-headingTwelve">
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/key-points.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/key-points.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/md5sum.txt b/md5sum.txt
index 4a46978..dc2e08f 100644
--- a/md5sum.txt
+++ b/md5sum.txt
@@ -1,17 +1,17 @@
 "file" "checksum" "built" "date"
-"CODE_OF_CONDUCT.md" "c93c83c630db2fe2462240bf72552548" "site/built/CODE_OF_CONDUCT.md" "2023-10-24"
-"LICENSE.md" "b24ebbb41b14ca25cf6b8216dda83e5f" "site/built/LICENSE.md" "2023-10-24"
-"config.yaml" "0dab73289fecfb94fc3103a200936186" "site/built/config.yaml" "2023-10-24"
-"index.md" "a02c9c785ed98ddd84fe3d34ddb12fcd" "site/built/index.md" "2023-10-24"
-"links.md" "8184cf4149eafbf03ce8da8ff0778c14" "site/built/links.md" "2023-10-24"
-"episodes/episode1.Rmd" "926badff629b1d85cfbf29a12e8c9291" "site/built/episode1.md" "2023-10-24"
-"episodes/episode2.Rmd" "ffacead9b9c7c4d5ca3af86ca7f59799" "site/built/episode2.md" "2023-10-24"
-"episodes/episode3.Rmd" "5852f58c31251027948529f82784e6f2" "site/built/episode3.md" "2023-10-24"
-"episodes/episode4.Rmd" "6e8692862a7c650245dea8cc18dde99c" "site/built/episode4.md" "2023-10-24"
-"episodes/episode5.Rmd" "cd73f8beb86205245cb08c773122cb3c" "site/built/episode5.md" "2023-10-24"
-"episodes/episode6.Rmd" "5f9f1d4bd28687ea04972b23e7bed3c0" "site/built/episode6.md" "2023-10-24"
-"instructors/instructor-notes.md" "cae72b6712578d74a49fea7513099f8c" "site/built/instructor-notes.md" "2023-10-24"
-"learners/reference.md" "1c7cc4e229304d9806a13f69ca1b8ba4" "site/built/reference.md" "2023-10-24"
-"learners/setup.md" "2499af5a77e67facf5bac24602034d6a" "site/built/setup.md" "2023-10-24"
-"profiles/learner-profiles.md" "60b93493cf1da06dfd63255d73854461" "site/built/learner-profiles.md" "2023-10-24"
-"renv/profiles/lesson-requirements/renv.lock" "94892bb67492557b9758696688523ea1" "site/built/renv.lock" "2023-10-24"
+"CODE_OF_CONDUCT.md" "c93c83c630db2fe2462240bf72552548" "site/built/CODE_OF_CONDUCT.md" "2023-10-31"
+"LICENSE.md" "b24ebbb41b14ca25cf6b8216dda83e5f" "site/built/LICENSE.md" "2023-10-31"
+"config.yaml" "0dab73289fecfb94fc3103a200936186" "site/built/config.yaml" "2023-10-31"
+"index.md" "a02c9c785ed98ddd84fe3d34ddb12fcd" "site/built/index.md" "2023-10-31"
+"links.md" "8184cf4149eafbf03ce8da8ff0778c14" "site/built/links.md" "2023-10-31"
+"episodes/episode1.Rmd" "926badff629b1d85cfbf29a12e8c9291" "site/built/episode1.md" "2023-10-31"
+"episodes/episode2.Rmd" "ffacead9b9c7c4d5ca3af86ca7f59799" "site/built/episode2.md" "2023-10-31"
+"episodes/episode3.Rmd" "5852f58c31251027948529f82784e6f2" "site/built/episode3.md" "2023-10-31"
+"episodes/episode4.Rmd" "6e8692862a7c650245dea8cc18dde99c" "site/built/episode4.md" "2023-10-31"
+"episodes/episode5.Rmd" "cd73f8beb86205245cb08c773122cb3c" "site/built/episode5.md" "2023-10-31"
+"episodes/episode6.Rmd" "5f9f1d4bd28687ea04972b23e7bed3c0" "site/built/episode6.md" "2023-10-31"
+"instructors/instructor-notes.md" "cae72b6712578d74a49fea7513099f8c" "site/built/instructor-notes.md" "2023-10-31"
+"learners/reference.md" "1c7cc4e229304d9806a13f69ca1b8ba4" "site/built/reference.md" "2023-10-31"
+"learners/setup.md" "2499af5a77e67facf5bac24602034d6a" "site/built/setup.md" "2023-10-31"
+"profiles/learner-profiles.md" "60b93493cf1da06dfd63255d73854461" "site/built/learner-profiles.md" "2023-10-31"
+"renv/profiles/lesson-requirements/renv.lock" "666a419a04e69a14ad1249916cfff938" "site/built/renv.lock" "2023-10-31"
diff --git a/pkgdown.yml b/pkgdown.yml
index 01dcbd5..dcf5444 100644
--- a/pkgdown.yml
+++ b/pkgdown.yml
@@ -2,5 +2,5 @@ pandoc: 2.19.2
 pkgdown: 2.0.7
 pkgdown_sha: ~
 articles: {}
-last_built: 2023-10-24T00:43Z
+last_built: 2023-10-31T00:46Z
 
diff --git a/profiles.html b/profiles.html
index fc888cb..566f355 100644
--- a/profiles.html
+++ b/profiles.html
@@ -294,8 +294,8 @@ <h1>Learner Profiles</h1>
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/profiles.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/profiles.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>
diff --git a/reference.html b/reference.html
index 8848c8e..0b2efec 100644
--- a/reference.html
+++ b/reference.html
@@ -256,7 +256,7 @@ <h2 class="accordion-header" id="flush-headingTwelve">
       </div>
       <hr></nav><main id="main-content" class="main-content"><div class="container lesson-content">
         <h1>Reference</h1>
-        <p> Last updated on 2023-10-24 | 
+        <p> Last updated on 2023-10-31 | 
         
         <a href="https://github.com/carpentries-incubator/rna-seq-data-for-ml.git/edit/main/learners/reference.md" class="external-link">Edit this page <i aria-hidden="true" data-feather="edit"></i></a></p>
         
@@ -333,8 +333,8 @@ <h1>Reference</h1>
   "url": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/reference.html",
   "identifier": "https://carpentries-incubator.github.io/rna-seq-data-for-ml.git/reference.html",
   "dateCreated": "2023-05-23",
-  "dateModified": "2023-10-24",
-  "datePublished": "2023-10-24"
+  "dateModified": "2023-10-31",
+  "datePublished": "2023-10-31"
 }
 
   </script><script>