From a330b4b318508c32d1019295dcc15e88fe2ea151 Mon Sep 17 00:00:00 2001
From: Evelyn Greeves <ejg553@york.ac.uk>
Date: Thu, 11 Jul 2024 13:28:02 +0100
Subject: [PATCH] Merge index and intro pages; a few other minor changes

---
 _book/code-of-conduct.html    |  38 +++++-------
 _book/contributing-guide.html |  61 +++++++++----------
 _book/index.html              |  98 ++++++++++++++++++++++++------
 _book/our-courses.html        |  29 ++++-----
 _book/search.json             | 110 +++++++++++++++++++++++-----------
 _quarto.yml                   |   1 -
 code-of-conduct.qmd           |   8 +--
 contributing-guide.qmd        |  27 +++++----
 index.qmd                     |  28 ++++++---
 intro.qmd                     |  26 --------
 10 files changed, 247 insertions(+), 179 deletions(-)
 delete mode 100644 intro.qmd

diff --git a/_book/code-of-conduct.html b/_book/code-of-conduct.html
index 26da073..701195c 100644
--- a/_book/code-of-conduct.html
+++ b/_book/code-of-conduct.html
@@ -7,7 +7,7 @@
 <meta name="viewport" content="width=device-width, initial-scale=1.0, user-scalable=yes">
 
 
-<title>Cloud-SPAN Handbook - 3&nbsp; Code of Conduct</title>
+<title>Cloud-SPAN Handbook - 2&nbsp; Code of Conduct</title>
 <style>
 code{white-space: pre-wrap;}
 span.smallcaps{font-variant: small-caps;}
@@ -31,7 +31,7 @@
 <script src="site_libs/quarto-search/quarto-search.js"></script>
 <meta name="quarto:offset" content="./">
 <link href="./our-courses.html" rel="next">
-<link href="./intro.html" rel="prev">
+<link href="./index.html" rel="prev">
 <script src="site_libs/quarto-html/quarto.js"></script>
 <script src="site_libs/quarto-html/popper.min.js"></script>
 <script src="site_libs/quarto-html/tippy.umd.min.js"></script>
@@ -81,7 +81,7 @@
       <button type="button" class="quarto-btn-toggle btn" data-bs-toggle="collapse" data-bs-target=".quarto-sidebar-collapse-item" aria-controls="quarto-sidebar" aria-expanded="false" aria-label="Toggle sidebar navigation" onclick="if (window.quartoToggleHeadroom) { window.quartoToggleHeadroom(); }">
         <i class="bi bi-layout-text-sidebar-reverse"></i>
       </button>
-        <nav class="quarto-page-breadcrumbs" aria-label="breadcrumb"><ol class="breadcrumb"><li class="breadcrumb-item"><a href="./code-of-conduct.html"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Code of Conduct</span></a></li></ol></nav>
+        <nav class="quarto-page-breadcrumbs" aria-label="breadcrumb"><ol class="breadcrumb"><li class="breadcrumb-item"><a href="./code-of-conduct.html"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">Code of Conduct</span></a></li></ol></nav>
         <a class="flex-grow-1" role="button" data-bs-toggle="collapse" data-bs-target=".quarto-sidebar-collapse-item" aria-controls="quarto-sidebar" aria-expanded="false" aria-label="Toggle sidebar navigation" onclick="if (window.quartoToggleHeadroom) { window.quartoToggleHeadroom(); }">      
         </a>
       <button type="button" class="btn quarto-search-button" aria-label="" onclick="window.quartoOpenSearch();">
@@ -109,43 +109,37 @@
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./index.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Cloud-SPAN Handbook</span></span></a>
-  </div>
-</li>
-        <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="./intro.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">Introduction</span></span></a>
+ <span class="menu-text"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Introduction</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./code-of-conduct.html" class="sidebar-item-text sidebar-link active">
- <span class="menu-text"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Code of Conduct</span></span></a>
+ <span class="menu-text"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">Code of Conduct</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./our-courses.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">4</span>&nbsp; <span class="chapter-title">Our Courses</span></span></a>
+ <span class="menu-text"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Our Courses</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./self-study.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">5</span>&nbsp; <span class="chapter-title">Self-studying our courses</span></span></a>
+ <span class="menu-text"><span class="chapter-number">4</span>&nbsp; <span class="chapter-title">Self-studying</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./contributing-guide.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">6</span>&nbsp; <span class="chapter-title">The Cloud-SPAN commmunity</span></span></a>
+ <span class="menu-text"><span class="chapter-number">5</span>&nbsp; <span class="chapter-title">The Cloud-SPAN commmunity</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./FAIR-principles.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">7</span>&nbsp; <span class="chapter-title">FAIR Principles</span></span></a>
+ <span class="menu-text"><span class="chapter-number">6</span>&nbsp; <span class="chapter-title">FAIR Principles</span></span></a>
   </div>
 </li>
     </ul>
@@ -177,7 +171,7 @@ <h2 id="toc-title">Table of contents</h2>
 
 <header id="title-block-header" class="quarto-title-block default">
 <div class="quarto-title">
-<h1 class="title"><span id="coc" class="quarto-section-identifier"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Code of Conduct</span></span></h1>
+<h1 class="title"><span id="coc" class="quarto-section-identifier"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">Code of Conduct</span></span></h1>
 </div>
 
 
@@ -196,8 +190,8 @@ <h1 class="title"><span id="coc" class="quarto-section-identifier"><span class="
 
 <section id="preamble" class="level2">
 <h2 class="anchored" data-anchor-id="preamble">Preamble</h2>
-<p>The CloudSPAN team are dedicated to providing a welcoming and supportive environment for all people, regardless of background or identity. As such, we do not tolerate behaviour that is disrespectful to our community members or that excludes, intimidates, or causes discomfort to others. We do not tolerate discrimination or harassment based on characteristics that include, but are not limited to: gender identity and expression, sexual orientation, disability, physical appearance, body size, citizenship, nationality, ethnic or social origin, pregnancy, familial status, veteran status, genetic information, religion or belief (or lack thereof), membership of a national minority, property, age, education, socio-economic status, technical choices, and experience level.</p>
-<p>Everyone who participates in CloudSPAN project activities is required to conform to this Code of Conduct. This Code of Conduct applies to all spaces managed by the CloudSPAN project including, but not limited to, in person focus groups and workshops, and communications online via GitHub. By participating, contributors indicate their acceptance of the procedures by which the project core development team resolves any Code of Conduct incidents, which may include storage and processing of their personal information.</p>
+<p>The Cloud-SPAN team are dedicated to providing a welcoming and supportive environment for all people, regardless of background or identity. As such, we do not tolerate behaviour that is disrespectful to our community members or that excludes, intimidates, or causes discomfort to others. We do not tolerate discrimination or harassment based on characteristics that include, but are not limited to: gender identity and expression, sexual orientation, disability, physical appearance, body size, citizenship, nationality, ethnic or social origin, pregnancy, familial status, veteran status, genetic information, religion or belief (or lack thereof), membership of a national minority, property, age, education, socio-economic status, technical choices, and experience level.</p>
+<p>Everyone who participates in Cloud-SPAN project activities is required to conform to this Code of Conduct. This Code of Conduct applies to all spaces managed by the Cloud-SPAN project including, but not limited to, in person focus groups and workshops, and communications online via GitHub. By participating, contributors indicate their acceptance of the procedures by which the project core development team resolves any Code of Conduct incidents, which may include storage and processing of their personal information.</p>
 </section>
 <section id="our-code-of-conduct" class="level2">
 <h2 class="anchored" data-anchor-id="our-code-of-conduct">Our Code of Conduct</h2>
@@ -209,9 +203,7 @@ <h2 class="anchored" data-anchor-id="our-code-of-conduct">Our Code of Conduct</h
 <li><p><strong>Respect the privacy and safety of others.</strong> Do not take photographs of others without their permission. Do not share other participant’s personal experiences without their express permission. Note that posting (or threatening to post) personally identifying information of others without their consent (“doxing”) is a form of harassment.</p></li>
 <li><p><strong>Be considerate of others’ participation.</strong> Everyone should have an opportunity to be heard. In update sessions, please keep comments succinct so as to allow maximum engagement by all participants. Do not interrupt others on the basis of disagreement; hold such comments until they have finished speaking.</p></li>
 <li><p><strong>Don’t be a bystander.</strong> If you see something inappropriate happening, speak up. If you don’t feel comfortable intervening but feel someone should, please feel free to ask a member of the Code of Conduct response team for support.</p></li>
-<li><p>As an overriding general rule, <strong>please be intentional in your actions and humble in your mistakes</strong>.</p></li>
 </ul>
-<p>All interactions should be professional regardless of platform: either online or in-person. See <a href="https://www.recurse.com/manual#sub-sec-social-rules">this explanation of the four social rules</a> - no feigning surprise, no well-actually’s, no back-seat driving, no subtle -isms - for further recommendations for inclusive behaviours.</p>
 <section id="unacceptable-behaviour" class="level3">
 <h3 class="anchored" data-anchor-id="unacceptable-behaviour">Unacceptable Behaviour</h3>
 <p>Examples of unacceptable behaviour by community members at any project event or platform include:</p>
@@ -670,13 +662,13 @@ <h2 class="anchored" data-anchor-id="acknowledgements">Acknowledgements</h2>
 </script>
 <nav class="page-navigation">
   <div class="nav-page nav-page-previous">
-      <a href="./intro.html" class="pagination-link" aria-label="Introduction">
-        <i class="bi bi-arrow-left-short"></i> <span class="nav-page-text"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">Introduction</span></span>
+      <a href="./index.html" class="pagination-link" aria-label="Introduction">
+        <i class="bi bi-arrow-left-short"></i> <span class="nav-page-text"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Introduction</span></span>
       </a>          
   </div>
   <div class="nav-page nav-page-next">
       <a href="./our-courses.html" class="pagination-link" aria-label="Our Courses">
-        <span class="nav-page-text"><span class="chapter-number">4</span>&nbsp; <span class="chapter-title">Our Courses</span></span> <i class="bi bi-arrow-right-short"></i>
+        <span class="nav-page-text"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Our Courses</span></span> <i class="bi bi-arrow-right-short"></i>
       </a>
   </div>
 </nav>
diff --git a/_book/contributing-guide.html b/_book/contributing-guide.html
index ae524cf..dad6a46 100644
--- a/_book/contributing-guide.html
+++ b/_book/contributing-guide.html
@@ -7,7 +7,7 @@
 <meta name="viewport" content="width=device-width, initial-scale=1.0, user-scalable=yes">
 
 
-<title>Cloud-SPAN Handbook - 6&nbsp; The Cloud-SPAN commmunity</title>
+<title>Cloud-SPAN Handbook - 5&nbsp; The Cloud-SPAN commmunity</title>
 <style>
 code{white-space: pre-wrap;}
 span.smallcaps{font-variant: small-caps;}
@@ -81,7 +81,7 @@
       <button type="button" class="quarto-btn-toggle btn" data-bs-toggle="collapse" data-bs-target=".quarto-sidebar-collapse-item" aria-controls="quarto-sidebar" aria-expanded="false" aria-label="Toggle sidebar navigation" onclick="if (window.quartoToggleHeadroom) { window.quartoToggleHeadroom(); }">
         <i class="bi bi-layout-text-sidebar-reverse"></i>
       </button>
-        <nav class="quarto-page-breadcrumbs" aria-label="breadcrumb"><ol class="breadcrumb"><li class="breadcrumb-item"><a href="./contributing-guide.html"><span class="chapter-number">6</span>&nbsp; <span class="chapter-title">The Cloud-SPAN commmunity</span></a></li></ol></nav>
+        <nav class="quarto-page-breadcrumbs" aria-label="breadcrumb"><ol class="breadcrumb"><li class="breadcrumb-item"><a href="./contributing-guide.html"><span class="chapter-number">5</span>&nbsp; <span class="chapter-title">The Cloud-SPAN commmunity</span></a></li></ol></nav>
         <a class="flex-grow-1" role="button" data-bs-toggle="collapse" data-bs-target=".quarto-sidebar-collapse-item" aria-controls="quarto-sidebar" aria-expanded="false" aria-label="Toggle sidebar navigation" onclick="if (window.quartoToggleHeadroom) { window.quartoToggleHeadroom(); }">      
         </a>
       <button type="button" class="btn quarto-search-button" aria-label="" onclick="window.quartoOpenSearch();">
@@ -109,43 +109,37 @@
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./index.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Cloud-SPAN Handbook</span></span></a>
-  </div>
-</li>
-        <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="./intro.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">Introduction</span></span></a>
+ <span class="menu-text"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Introduction</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./code-of-conduct.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Code of Conduct</span></span></a>
+ <span class="menu-text"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">Code of Conduct</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./our-courses.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">4</span>&nbsp; <span class="chapter-title">Our Courses</span></span></a>
+ <span class="menu-text"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Our Courses</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./self-study.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">5</span>&nbsp; <span class="chapter-title">Self-studying</span></span></a>
+ <span class="menu-text"><span class="chapter-number">4</span>&nbsp; <span class="chapter-title">Self-studying</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./contributing-guide.html" class="sidebar-item-text sidebar-link active">
- <span class="menu-text"><span class="chapter-number">6</span>&nbsp; <span class="chapter-title">The Cloud-SPAN commmunity</span></span></a>
+ <span class="menu-text"><span class="chapter-number">5</span>&nbsp; <span class="chapter-title">The Cloud-SPAN commmunity</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./FAIR-principles.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">7</span>&nbsp; <span class="chapter-title">FAIR Principles</span></span></a>
+ <span class="menu-text"><span class="chapter-number">6</span>&nbsp; <span class="chapter-title">FAIR Principles</span></span></a>
   </div>
 </li>
     </ul>
@@ -158,14 +152,14 @@
     <h2 id="toc-title">Table of contents</h2>
    
   <ul>
-  <li><a href="#ways-to-contribute" id="toc-ways-to-contribute" class="nav-link active" data-scroll-target="#ways-to-contribute"><span class="header-section-number">6.1</span> Ways to contribute</a>
+  <li><a href="#ways-to-contribute" id="toc-ways-to-contribute" class="nav-link active" data-scroll-target="#ways-to-contribute">Ways to contribute</a>
   <ul class="collapse">
   <li><a href="#learn" id="toc-learn" class="nav-link" data-scroll-target="#learn">Learn</a></li>
   <li><a href="#connect" id="toc-connect" class="nav-link" data-scroll-target="#connect">Connect</a></li>
   <li><a href="#help" id="toc-help" class="nav-link" data-scroll-target="#help">Help</a></li>
   <li><a href="#expand" id="toc-expand" class="nav-link" data-scroll-target="#expand">Expand</a></li>
   </ul></li>
-  <li><a href="#using-github-to-contribute" id="toc-using-github-to-contribute" class="nav-link" data-scroll-target="#using-github-to-contribute"><span class="header-section-number">6.2</span> Using GitHub to contribute</a></li>
+  <li><a href="#using-github-to-contribute" id="toc-using-github-to-contribute" class="nav-link" data-scroll-target="#using-github-to-contribute">Using GitHub to contribute</a></li>
   </ul>
 </nav>
     </div>
@@ -174,7 +168,7 @@ <h2 id="toc-title">Table of contents</h2>
 
 <header id="title-block-header" class="quarto-title-block default">
 <div class="quarto-title">
-<h1 class="title"><span id="community" class="quarto-section-identifier"><span class="chapter-number">6</span>&nbsp; <span class="chapter-title">The Cloud-SPAN commmunity</span></span></h1>
+<h1 class="title"><span id="community" class="quarto-section-identifier"><span class="chapter-number">5</span>&nbsp; <span class="chapter-title">The Cloud-SPAN commmunity</span></span></h1>
 </div>
 
 
@@ -204,28 +198,29 @@ <h1 class="title"><span id="community" class="quarto-section-identifier"><span c
 <p>…then the Cloud-SPAN community is for you!</p>
 <p>There are lots of ways to contribute and we welcome all of them! Contributing, and joining our community, doesn’t have to mean writing technical code.</p>
 <p>Here are some ideas of ways you can contribute:</p>
-<section id="ways-to-contribute" class="level2" data-number="6.1">
-<h2 data-number="6.1" class="anchored" data-anchor-id="ways-to-contribute"><span class="header-section-number">6.1</span> Ways to contribute</h2>
-<section id="learn" class="level3 unnumbered">
-<h3 class="unnumbered anchored" data-anchor-id="learn">Learn</h3>
+<section id="ways-to-contribute" class="level2">
+<h2 class="anchored" data-anchor-id="ways-to-contribute">Ways to contribute</h2>
+<section id="learn" class="level3">
+<h3 class="anchored" data-anchor-id="learn">Learn</h3>
 <ul>
-<li>Attend or work through our Foundations in Genomics course.</li>
+<li>Attend or work through one of our <a href="our-courses.html">courses</a>.</li>
 </ul>
 </section>
-<section id="connect" class="level3 unnumbered">
-<h3 class="unnumbered anchored" data-anchor-id="connect">Connect</h3>
+<section id="connect" class="level3">
+<h3 class="anchored" data-anchor-id="connect">Connect</h3>
 <ul>
 <li>Join our <em>Community of Practice</em>.</li>
+<li>Come along to one of our code retreats to get help applying your skills and meet other researchers working in similar fields.</li>
 </ul>
 </section>
-<section id="help" class="level3 unnumbered">
-<h3 class="unnumbered anchored" data-anchor-id="help">Help</h3>
+<section id="help" class="level3">
+<h3 class="anchored" data-anchor-id="help">Help</h3>
 <ul>
 <li>Tell us about bugs or problems you encounter in the course.</li>
 </ul>
 </section>
-<section id="expand" class="level3 unnumbered">
-<h3 class="unnumbered anchored" data-anchor-id="expand">Expand</h3>
+<section id="expand" class="level3">
+<h3 class="anchored" data-anchor-id="expand">Expand</h3>
 <ul>
 <li>Suggest new/different software tools for analysis.</li>
 <li>Contribute new examples.</li>
@@ -233,9 +228,9 @@ <h3 class="unnumbered anchored" data-anchor-id="expand">Expand</h3>
 </ul>
 </section>
 </section>
-<section id="using-github-to-contribute" class="level2" data-number="6.2">
-<h2 data-number="6.2" class="anchored" data-anchor-id="using-github-to-contribute"><span class="header-section-number">6.2</span> Using GitHub to contribute</h2>
-<p>We use GitHub as a tool for managing version control (AKA keeping a record of the project’s development). This helps us stay accountable and transparent. It’s also one of the ways we are making steps towards adhering to the [FAIR Principles].</p>
+<section id="using-github-to-contribute" class="level2">
+<h2 class="anchored" data-anchor-id="using-github-to-contribute">Using GitHub to contribute</h2>
+<p>We use GitHub as a tool for managing version control (AKA keeping a record of the project’s development). This helps us stay accountable and transparent. It’s also one of the ways we are making steps towards adhering to the [FAIR Principles](#fair-principles).</p>
 <p>If you want to contribute any content such as an update to the course or a new example then via GitHub is the best place to get in contact. For lots more guidance about how to contribute via GitHub, read our <a href="https://github.com/Cloud-SPAN/CloudSPAN-handbook/blob/main/CONTRIBUTING.md">GitHub Contribution Guide</a>.</p>
 <p>Git (the programming language underlying Github) and Github can be a little intimidating at first but don’t worry, the team are here to hold your hand! 🤝</p>
 
@@ -655,12 +650,12 @@ <h2 data-number="6.2" class="anchored" data-anchor-id="using-github-to-contribut
 <nav class="page-navigation">
   <div class="nav-page nav-page-previous">
       <a href="./self-study.html" class="pagination-link" aria-label="Self-studying">
-        <i class="bi bi-arrow-left-short"></i> <span class="nav-page-text"><span class="chapter-number">5</span>&nbsp; <span class="chapter-title">Self-studying</span></span>
+        <i class="bi bi-arrow-left-short"></i> <span class="nav-page-text"><span class="chapter-number">4</span>&nbsp; <span class="chapter-title">Self-studying</span></span>
       </a>          
   </div>
   <div class="nav-page nav-page-next">
       <a href="./FAIR-principles.html" class="pagination-link" aria-label="FAIR Principles">
-        <span class="nav-page-text"><span class="chapter-number">7</span>&nbsp; <span class="chapter-title">FAIR Principles</span></span> <i class="bi bi-arrow-right-short"></i>
+        <span class="nav-page-text"><span class="chapter-number">6</span>&nbsp; <span class="chapter-title">FAIR Principles</span></span> <i class="bi bi-arrow-right-short"></i>
       </a>
   </div>
 </nav>
diff --git a/_book/index.html b/_book/index.html
index 8e12b2b..1fc6065 100644
--- a/_book/index.html
+++ b/_book/index.html
@@ -31,7 +31,7 @@
 <script src="site_libs/quarto-search/fuse.min.js"></script>
 <script src="site_libs/quarto-search/quarto-search.js"></script>
 <meta name="quarto:offset" content="./">
-<link href="./intro.html" rel="next">
+<link href="./code-of-conduct.html" rel="next">
 <script src="site_libs/quarto-html/quarto.js"></script>
 <script src="site_libs/quarto-html/popper.min.js"></script>
 <script src="site_libs/quarto-html/tippy.umd.min.js"></script>
@@ -81,7 +81,7 @@
       <button type="button" class="quarto-btn-toggle btn" data-bs-toggle="collapse" data-bs-target=".quarto-sidebar-collapse-item" aria-controls="quarto-sidebar" aria-expanded="false" aria-label="Toggle sidebar navigation" onclick="if (window.quartoToggleHeadroom) { window.quartoToggleHeadroom(); }">
         <i class="bi bi-layout-text-sidebar-reverse"></i>
       </button>
-        <nav class="quarto-page-breadcrumbs" aria-label="breadcrumb"><ol class="breadcrumb"><li class="breadcrumb-item"><a href="./index.html"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Cloud-SPAN Handbook</span></a></li></ol></nav>
+        <nav class="quarto-page-breadcrumbs" aria-label="breadcrumb"><ol class="breadcrumb"><li class="breadcrumb-item"><a href="./index.html"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Introduction</span></a></li></ol></nav>
         <a class="flex-grow-1" role="button" data-bs-toggle="collapse" data-bs-target=".quarto-sidebar-collapse-item" aria-controls="quarto-sidebar" aria-expanded="false" aria-label="Toggle sidebar navigation" onclick="if (window.quartoToggleHeadroom) { window.quartoToggleHeadroom(); }">      
         </a>
       <button type="button" class="btn quarto-search-button" aria-label="" onclick="window.quartoOpenSearch();">
@@ -109,25 +109,25 @@
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./index.html" class="sidebar-item-text sidebar-link active">
- <span class="menu-text"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Cloud-SPAN Handbook</span></span></a>
+ <span class="menu-text"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Introduction</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
-  <a href="./intro.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">Introduction</span></span></a>
+  <a href="./code-of-conduct.html" class="sidebar-item-text sidebar-link">
+ <span class="menu-text"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">Code of Conduct</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
-  <a href="./code-of-conduct.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Code of Conduct</span></span></a>
+  <a href="./our-courses.html" class="sidebar-item-text sidebar-link">
+ <span class="menu-text"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Our Courses</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
-  <a href="./our-courses.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">4</span>&nbsp; <span class="chapter-title">Our Courses</span></span></a>
+  <a href="./self-study.html" class="sidebar-item-text sidebar-link">
+ <span class="menu-text"><span class="chapter-number">4</span>&nbsp; <span class="chapter-title">Self-studying</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
@@ -154,7 +154,12 @@ <h2 id="toc-title">Table of contents</h2>
   <ul>
   <li><a href="#welcome" id="toc-welcome" class="nav-link active" data-scroll-target="#welcome">Welcome!</a>
   <ul class="collapse">
-  <li><a href="#handbook-contents" id="toc-handbook-contents" class="nav-link" data-scroll-target="#handbook-contents">Handbook Contents 📋</a></li>
+  <li><a href="#intro" id="toc-intro" class="nav-link" data-scroll-target="#intro">Introduction</a>
+  <ul class="collapse">
+  <li><a href="#about-cloud-span" id="toc-about-cloud-span" class="nav-link" data-scroll-target="#about-cloud-span">About Cloud-SPAN</a></li>
+  <li><a href="#about-this-handbook" id="toc-about-this-handbook" class="nav-link" data-scroll-target="#about-this-handbook">About this handbook</a></li>
+  <li><a href="#project-team" id="toc-project-team" class="nav-link" data-scroll-target="#project-team">Project team</a></li>
+  </ul></li>
   </ul></li>
   </ul>
 </nav>
@@ -190,15 +195,70 @@ <h1 class="title">Cloud-SPAN Handbook</h1>
 <section id="welcome" class="level1 unnumbered">
 <h1 class="unnumbered">Welcome!</h1>
 <p><img src="images/cloud-span-logo-text.png" class="img-fluid"> <em>Welcome to the <a href="https://cloud-span.york.ac.uk/">Cloud-SPAN</a> handbook! It’s great to have you here!</em></p>
-<section id="handbook-contents" class="level2 unnumbered">
-<h2 class="unnumbered anchored" data-anchor-id="handbook-contents">Handbook Contents 📋</h2>
-<p>⭐ <a href="intro.html">Introduction</a><br>
-🤝 <a href="code-of-conduct.html">Code of Conduct</a><br>
-🎓 <a href="our-courses.html">Our Courses</a><br>
-👪 <a href="contributing-guide.html">The Cloud-SPAN Community</a><br>
-📌 <a href="FAIR-principles.html">FAIR Principles</a></p>
+<section id="intro" class="level2">
+<h2 class="anchored" data-anchor-id="intro">Introduction</h2>
+<section id="about-cloud-span" class="level3">
+<h3 class="anchored" data-anchor-id="about-cloud-span">About Cloud-SPAN</h3>
+<p>Cloud-SPAN deploys high quality learning resources that will train researchers to effectively generate and analyse a range of ’omics data using Cloud computing resources. <a href="our-courses.html">Read more about our courses</a>.</p>
+<p>Cloud-SPAN is a collaboration between the <a href="https://www.york.ac.uk/biology/">Department of Biology</a> at the University of York and the <a href="https://www.software.ac.uk/">Software Sustainability Institute</a>, and funded by the <a href="https://www.ukri.org/news/initiatives-boost-health-and-bioscience-skills-and-industry/">UKRI innovation scholars award</a> under project reference <a href="https://gtr.ukri.org/projects?ref=MR%2FV038680%2F1">MR/V038680/1</a>.</p>
+</section>
+<section id="about-this-handbook" class="level3">
+<h3 class="anchored" data-anchor-id="about-this-handbook">About this handbook</h3>
+<p>This handbook is intended as a reference for both the core Cloud-SPAN team (see below) and for our wider community of learners. It’s where you’ll find our <a href="code-of-conduct.html">Code of Conduct</a>, contributing guidelines and other practical information which will help you make the most of our resources in a friendly, understanding environment.</p>
+</section>
+<section id="project-team" class="level3">
+<h3 class="anchored" data-anchor-id="project-team">Project team</h3>
+<table class="caption-top table">
+<thead>
+<tr class="header">
+<th>Name</th>
+<th>Role</th>
+<th>Institution</th>
+<th></th>
+<th></th>
+</tr>
+</thead>
+<tbody>
+<tr class="odd">
+<td>Emma Rand</td>
+<td>Project oversight</td>
+<td>Uni of York</td>
+<td></td>
+<td></td>
+</tr>
+<tr class="even">
+<td>Jorge Buenabad-Chavez</td>
+<td>Cloud deliverer</td>
+<td>Uni of York</td>
+<td></td>
+<td></td>
+</tr>
+<tr class="odd">
+<td>Evelyn Greeves</td>
+<td>FAIR Training Lead</td>
+<td>Uni of York</td>
+<td></td>
+<td></td>
+</tr>
+<tr class="even">
+<td>Pasky Miranda</td>
+<td>Research Training Lead</td>
+<td>Uni of York</td>
+<td></td>
+<td></td>
+</tr>
+<tr class="odd">
+<td>Sarah Dowsland</td>
+<td>Project Manager</td>
+<td>Uni of York</td>
+<td></td>
+<td></td>
+</tr>
+</tbody>
+</table>
 
 
+</section>
 </section>
 </section>
 
@@ -616,8 +676,8 @@ <h2 class="unnumbered anchored" data-anchor-id="handbook-contents">Handbook Cont
   <div class="nav-page nav-page-previous">
   </div>
   <div class="nav-page nav-page-next">
-      <a href="./intro.html" class="pagination-link" aria-label="Introduction">
-        <span class="nav-page-text"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">Introduction</span></span> <i class="bi bi-arrow-right-short"></i>
+      <a href="./code-of-conduct.html" class="pagination-link" aria-label="Code of Conduct">
+        <span class="nav-page-text"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">Code of Conduct</span></span> <i class="bi bi-arrow-right-short"></i>
       </a>
   </div>
 </nav>
diff --git a/_book/our-courses.html b/_book/our-courses.html
index 429ef47..487615a 100644
--- a/_book/our-courses.html
+++ b/_book/our-courses.html
@@ -7,7 +7,7 @@
 <meta name="viewport" content="width=device-width, initial-scale=1.0, user-scalable=yes">
 
 
-<title>Cloud-SPAN Handbook - 4&nbsp; Our Courses</title>
+<title>Cloud-SPAN Handbook - 3&nbsp; Our Courses</title>
 <style>
 code{white-space: pre-wrap;}
 span.smallcaps{font-variant: small-caps;}
@@ -81,7 +81,7 @@
       <button type="button" class="quarto-btn-toggle btn" data-bs-toggle="collapse" data-bs-target=".quarto-sidebar-collapse-item" aria-controls="quarto-sidebar" aria-expanded="false" aria-label="Toggle sidebar navigation" onclick="if (window.quartoToggleHeadroom) { window.quartoToggleHeadroom(); }">
         <i class="bi bi-layout-text-sidebar-reverse"></i>
       </button>
-        <nav class="quarto-page-breadcrumbs" aria-label="breadcrumb"><ol class="breadcrumb"><li class="breadcrumb-item"><a href="./our-courses.html"><span class="chapter-number">4</span>&nbsp; <span class="chapter-title">Our Courses</span></a></li></ol></nav>
+        <nav class="quarto-page-breadcrumbs" aria-label="breadcrumb"><ol class="breadcrumb"><li class="breadcrumb-item"><a href="./our-courses.html"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Our Courses</span></a></li></ol></nav>
         <a class="flex-grow-1" role="button" data-bs-toggle="collapse" data-bs-target=".quarto-sidebar-collapse-item" aria-controls="quarto-sidebar" aria-expanded="false" aria-label="Toggle sidebar navigation" onclick="if (window.quartoToggleHeadroom) { window.quartoToggleHeadroom(); }">      
         </a>
       <button type="button" class="btn quarto-search-button" aria-label="" onclick="window.quartoOpenSearch();">
@@ -109,43 +109,37 @@
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./index.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Cloud-SPAN Handbook</span></span></a>
-  </div>
-</li>
-        <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="./intro.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">Introduction</span></span></a>
+ <span class="menu-text"><span class="chapter-number">1</span>&nbsp; <span class="chapter-title">Introduction</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./code-of-conduct.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Code of Conduct</span></span></a>
+ <span class="menu-text"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">Code of Conduct</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./our-courses.html" class="sidebar-item-text sidebar-link active">
- <span class="menu-text"><span class="chapter-number">4</span>&nbsp; <span class="chapter-title">Our Courses</span></span></a>
+ <span class="menu-text"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Our Courses</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./self-study.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">5</span>&nbsp; <span class="chapter-title">Self-studying</span></span></a>
+ <span class="menu-text"><span class="chapter-number">4</span>&nbsp; <span class="chapter-title">Self-studying</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./contributing-guide.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">6</span>&nbsp; <span class="chapter-title">The Cloud-SPAN commmunity</span></span></a>
+ <span class="menu-text"><span class="chapter-number">5</span>&nbsp; <span class="chapter-title">The Cloud-SPAN commmunity</span></span></a>
   </div>
 </li>
         <li class="sidebar-item">
   <div class="sidebar-item-container"> 
   <a href="./FAIR-principles.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text"><span class="chapter-number">7</span>&nbsp; <span class="chapter-title">FAIR Principles</span></span></a>
+ <span class="menu-text"><span class="chapter-number">6</span>&nbsp; <span class="chapter-title">FAIR Principles</span></span></a>
   </div>
 </li>
     </ul>
@@ -172,7 +166,7 @@ <h2 id="toc-title">Table of contents</h2>
 
 <header id="title-block-header" class="quarto-title-block default">
 <div class="quarto-title">
-<h1 class="title"><span id="courses" class="quarto-section-identifier"><span class="chapter-number">4</span>&nbsp; <span class="chapter-title">Our Courses</span></span></h1>
+<h1 class="title"><span id="courses" class="quarto-section-identifier"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Our Courses</span></span></h1>
 </div>
 
 
@@ -195,6 +189,7 @@ <h1 class="title"><span id="courses" class="quarto-section-identifier"><span cla
 <li>They’re designed to be as accessible as possible to beginners, with lots of guidance and reassurance along the way.</li>
 <li>We use a technique called live coding to keep learners engaged - less lecturing, more doing.</li>
 <li>Most of our courses can either be studied as part of a taught online workshop or as self-study modules. Read more about how to self-study our courses <a href="self-study.html">here</a>.</li>
+<li>If you participate in a taught course, you’ll get free access to an AWS instance containing all the software and data you’ll need for the duration of the course.</li>
 </ul>
 <div class="callout callout-style-default callout-note callout-titled">
 <div class="callout-header d-flex align-content-center">
@@ -680,12 +675,12 @@ <h2 class="anchored" data-anchor-id="cloud-admin">Automated Management of AWS In
 <nav class="page-navigation">
   <div class="nav-page nav-page-previous">
       <a href="./code-of-conduct.html" class="pagination-link" aria-label="Code of Conduct">
-        <i class="bi bi-arrow-left-short"></i> <span class="nav-page-text"><span class="chapter-number">3</span>&nbsp; <span class="chapter-title">Code of Conduct</span></span>
+        <i class="bi bi-arrow-left-short"></i> <span class="nav-page-text"><span class="chapter-number">2</span>&nbsp; <span class="chapter-title">Code of Conduct</span></span>
       </a>          
   </div>
   <div class="nav-page nav-page-next">
       <a href="./self-study.html" class="pagination-link" aria-label="Self-studying">
-        <span class="nav-page-text"><span class="chapter-number">5</span>&nbsp; <span class="chapter-title">Self-studying</span></span> <i class="bi bi-arrow-right-short"></i>
+        <span class="nav-page-text"><span class="chapter-number">4</span>&nbsp; <span class="chapter-title">Self-studying</span></span> <i class="bi bi-arrow-right-short"></i>
       </a>
   </div>
 </nav>
diff --git a/_book/search.json b/_book/search.json
index 4de8d0f..bb54dea 100644
--- a/_book/search.json
+++ b/_book/search.json
@@ -32,61 +32,61 @@
   {
     "objectID": "code-of-conduct.html",
     "href": "code-of-conduct.html",
-    "title": "3  Code of Conduct",
+    "title": "2  Code of Conduct",
     "section": "",
-    "text": "Preamble\nThe CloudSPAN team are dedicated to providing a welcoming and supportive environment for all people, regardless of background or identity. As such, we do not tolerate behaviour that is disrespectful to our community members or that excludes, intimidates, or causes discomfort to others. We do not tolerate discrimination or harassment based on characteristics that include, but are not limited to: gender identity and expression, sexual orientation, disability, physical appearance, body size, citizenship, nationality, ethnic or social origin, pregnancy, familial status, veteran status, genetic information, religion or belief (or lack thereof), membership of a national minority, property, age, education, socio-economic status, technical choices, and experience level.\nEveryone who participates in CloudSPAN project activities is required to conform to this Code of Conduct. This Code of Conduct applies to all spaces managed by the CloudSPAN project including, but not limited to, in person focus groups and workshops, and communications online via GitHub. By participating, contributors indicate their acceptance of the procedures by which the project core development team resolves any Code of Conduct incidents, which may include storage and processing of their personal information.",
+    "text": "Preamble\nThe Cloud-SPAN team are dedicated to providing a welcoming and supportive environment for all people, regardless of background or identity. As such, we do not tolerate behaviour that is disrespectful to our community members or that excludes, intimidates, or causes discomfort to others. We do not tolerate discrimination or harassment based on characteristics that include, but are not limited to: gender identity and expression, sexual orientation, disability, physical appearance, body size, citizenship, nationality, ethnic or social origin, pregnancy, familial status, veteran status, genetic information, religion or belief (or lack thereof), membership of a national minority, property, age, education, socio-economic status, technical choices, and experience level.\nEveryone who participates in Cloud-SPAN project activities is required to conform to this Code of Conduct. This Code of Conduct applies to all spaces managed by the Cloud-SPAN project including, but not limited to, in person focus groups and workshops, and communications online via GitHub. By participating, contributors indicate their acceptance of the procedures by which the project core development team resolves any Code of Conduct incidents, which may include storage and processing of their personal information.",
     "crumbs": [
-      "<span class='chapter-number'>3</span>  <span class='chapter-title'>Code of Conduct</span>"
+      "<span class='chapter-number'>2</span>  <span class='chapter-title'>Code of Conduct</span>"
     ]
   },
   {
     "objectID": "code-of-conduct.html#our-code-of-conduct",
     "href": "code-of-conduct.html#our-code-of-conduct",
-    "title": "3  Code of Conduct",
+    "title": "2  Code of Conduct",
     "section": "Our Code of Conduct",
-    "text": "Our Code of Conduct\nWe are confident that our community members will together build a supportive and collaborative atmosphere at our events and during online communications. The following bullet points set out explicitly what we hope you will consider to be appropriate community guidelines:\n\nBe respectful of different viewpoints and experiences. Do not engage in homophobic, racist, transphobic, ageist, ableist, sexist, or otherwise exclusionary behaviour.\nUse welcoming and inclusive language. Exclusionary comments or jokes, threats or violent language are not acceptable. Do not address others in an angry, intimidating, or demeaning manner. Be considerate of the ways the words you choose may impact others. Be patient and respectful of the fact that English is a second (or third or fourth!) language for some participants.\nDo not harass people. Harassment includes unwanted physical contact, sexual attention, or repeated social contact (see below for an extended list of behaviours we consider to be harassment). Know that consent is explicit, conscious and continuous—not implied. If you are unsure whether your behaviour towards another person is welcome, ask them. If someone tells you to stop, do so.\nRespect the privacy and safety of others. Do not take photographs of others without their permission. Do not share other participant’s personal experiences without their express permission. Note that posting (or threatening to post) personally identifying information of others without their consent (“doxing”) is a form of harassment.\nBe considerate of others’ participation. Everyone should have an opportunity to be heard. In update sessions, please keep comments succinct so as to allow maximum engagement by all participants. Do not interrupt others on the basis of disagreement; hold such comments until they have finished speaking.\nDon’t be a bystander. If you see something inappropriate happening, speak up. If you don’t feel comfortable intervening but feel someone should, please feel free to ask a member of the Code of Conduct response team for support.\nAs an overriding general rule, please be intentional in your actions and humble in your mistakes.\n\nAll interactions should be professional regardless of platform: either online or in-person. See this explanation of the four social rules - no feigning surprise, no well-actually’s, no back-seat driving, no subtle -isms - for further recommendations for inclusive behaviours.\n\nUnacceptable Behaviour\nExamples of unacceptable behaviour by community members at any project event or platform include:\n\nwritten or verbal comments which have the effect of excluding people on the basis of membership of any specific group\ncausing someone to fear for their safety, such as through stalking, following, or intimidation\nviolent threats or language directed against another person\nthe display of sexual or violent images\nunwelcome sexual attention\nnonconsensual or unwelcome physical contact\nsustained disruption of talks, events or communications\ninsults or put downs\nsexist, racist, homophobic, transphobic, ableist, or exclusionary jokes\nexcessive swearing\nincitement to violence, suicide, or self-harm\ncontinuing to initiate interaction (including photography or recording) with someone after being asked to stop\npublication of private communication without consent\n\nCloudSPAN prioritises marginalised people’s safety over privileged people’s comfort. We will not act on complaints regarding:\n\n‘Reverse’ -isms, including ‘reverse racism,’ ‘reverse sexism,’ and ‘cisphobia’.\nReasonable communication of boundaries, such as “leave me alone,” “go away,” or “I’m not discussing this with you.”\nCommunicating in a ‘tone’ you don’t find congenial.\nCriticism of racist, sexist, cissexist, or otherwise oppressive behavior or assumptions.",
+    "text": "Our Code of Conduct\nWe are confident that our community members will together build a supportive and collaborative atmosphere at our events and during online communications. The following bullet points set out explicitly what we hope you will consider to be appropriate community guidelines:\n\nBe respectful of different viewpoints and experiences. Do not engage in homophobic, racist, transphobic, ageist, ableist, sexist, or otherwise exclusionary behaviour.\nUse welcoming and inclusive language. Exclusionary comments or jokes, threats or violent language are not acceptable. Do not address others in an angry, intimidating, or demeaning manner. Be considerate of the ways the words you choose may impact others. Be patient and respectful of the fact that English is a second (or third or fourth!) language for some participants.\nDo not harass people. Harassment includes unwanted physical contact, sexual attention, or repeated social contact (see below for an extended list of behaviours we consider to be harassment). Know that consent is explicit, conscious and continuous—not implied. If you are unsure whether your behaviour towards another person is welcome, ask them. If someone tells you to stop, do so.\nRespect the privacy and safety of others. Do not take photographs of others without their permission. Do not share other participant’s personal experiences without their express permission. Note that posting (or threatening to post) personally identifying information of others without their consent (“doxing”) is a form of harassment.\nBe considerate of others’ participation. Everyone should have an opportunity to be heard. In update sessions, please keep comments succinct so as to allow maximum engagement by all participants. Do not interrupt others on the basis of disagreement; hold such comments until they have finished speaking.\nDon’t be a bystander. If you see something inappropriate happening, speak up. If you don’t feel comfortable intervening but feel someone should, please feel free to ask a member of the Code of Conduct response team for support.\n\n\nUnacceptable Behaviour\nExamples of unacceptable behaviour by community members at any project event or platform include:\n\nwritten or verbal comments which have the effect of excluding people on the basis of membership of any specific group\ncausing someone to fear for their safety, such as through stalking, following, or intimidation\nviolent threats or language directed against another person\nthe display of sexual or violent images\nunwelcome sexual attention\nnonconsensual or unwelcome physical contact\nsustained disruption of talks, events or communications\ninsults or put downs\nsexist, racist, homophobic, transphobic, ableist, or exclusionary jokes\nexcessive swearing\nincitement to violence, suicide, or self-harm\ncontinuing to initiate interaction (including photography or recording) with someone after being asked to stop\npublication of private communication without consent\n\nCloudSPAN prioritises marginalised people’s safety over privileged people’s comfort. We will not act on complaints regarding:\n\n‘Reverse’ -isms, including ‘reverse racism,’ ‘reverse sexism,’ and ‘cisphobia’.\nReasonable communication of boundaries, such as “leave me alone,” “go away,” or “I’m not discussing this with you.”\nCommunicating in a ‘tone’ you don’t find congenial.\nCriticism of racist, sexist, cissexist, or otherwise oppressive behavior or assumptions.",
     "crumbs": [
-      "<span class='chapter-number'>3</span>  <span class='chapter-title'>Code of Conduct</span>"
+      "<span class='chapter-number'>2</span>  <span class='chapter-title'>Code of Conduct</span>"
     ]
   },
   {
     "objectID": "code-of-conduct.html#incident-reporting-guidelines",
     "href": "code-of-conduct.html#incident-reporting-guidelines",
-    "title": "3  Code of Conduct",
+    "title": "2  Code of Conduct",
     "section": "Incident Reporting Guidelines",
     "text": "Incident Reporting Guidelines\n\nContact points\nIf you feel able to, please contact Emma Rand by email at emma.rand@york.ac.uk\n\n\nAlternate contact points\nIf you do not feel comfortable contacting Emma Rand, please report an incident to Evelyn Greeves by email at evelyn.greeves@york.ac.uk",
     "crumbs": [
-      "<span class='chapter-number'>3</span>  <span class='chapter-title'>Code of Conduct</span>"
+      "<span class='chapter-number'>2</span>  <span class='chapter-title'>Code of Conduct</span>"
     ]
   },
   {
     "objectID": "code-of-conduct.html#acknowledgements",
     "href": "code-of-conduct.html#acknowledgements",
-    "title": "3  Code of Conduct",
+    "title": "2  Code of Conduct",
     "section": "Acknowledgements",
     "text": "Acknowledgements\nThis Code was adapted from the Turing Way Code of Conduct, which itself draws from the Carpentries and Alan Turing Institute Data Study Group codes of conduct. Both are licensed for reuse under a CC BY 4.0 CA license.\nMaterial was additionally drawn from the R Community Diversity, Equity, and Inclusion Working Group, also licensed under CC BY 4.0 CA.",
     "crumbs": [
-      "<span class='chapter-number'>3</span>  <span class='chapter-title'>Code of Conduct</span>"
+      "<span class='chapter-number'>2</span>  <span class='chapter-title'>Code of Conduct</span>"
     ]
   },
   {
     "objectID": "our-courses.html",
     "href": "our-courses.html",
-    "title": "4  Our Courses",
+    "title": "3  Our Courses",
     "section": "",
     "text": "Prenomics\nPrenomics is an interactive online course on understanding file systems and using the command line which takes place over 2 half days (roughly six hours of content). We developed this course after finding that people taking the Genomics course vary in their experiencing of navigating file systems and the command line (shell).\nTopics covered include:\nNO prior experience is necessary.",
     "crumbs": [
-      "<span class='chapter-number'>4</span>  <span class='chapter-title'>Our Courses</span>"
+      "<span class='chapter-number'>3</span>  <span class='chapter-title'>Our Courses</span>"
     ]
   },
   {
     "objectID": "our-courses.html#genomics",
     "href": "our-courses.html#genomics",
-    "title": "4  Our Courses",
+    "title": "3  Our Courses",
     "section": "Genomics",
     "text": "Genomics\nGenomics is a practical, tutor-led course taking place over 4 half days or 2 full days (roughly twelve hours of content). It teaches data management and analytical skills using cloud resources for genomic research.\nTopics covered include:\n\nproject management for cloud genomics\nwriting shell scripts\nassessing read quality\ntrimming/filtering reads\nfinding sequence variants.\n\nA basic knowledge of the shell is required, which can be obtained by attending/self-studying the Prenomics course.",
     "crumbs": [
-      "<span class='chapter-number'>4</span>  <span class='chapter-title'>Our Courses</span>"
+      "<span class='chapter-number'>3</span>  <span class='chapter-title'>Our Courses</span>"
     ]
   },
   {
@@ -126,7 +126,7 @@
     "section": "",
     "text": "Welcome!\nWelcome to the Cloud-SPAN handbook! It’s great to have you here!",
     "crumbs": [
-      "<span class='chapter-number'>1</span>  <span class='chapter-title'>Cloud-SPAN Handbook</span>"
+      "<span class='chapter-number'>1</span>  <span class='chapter-title'>Introduction</span>"
     ]
   },
   {
@@ -152,81 +152,121 @@
   {
     "objectID": "contributing-guide.html",
     "href": "contributing-guide.html",
-    "title": "6  The Cloud-SPAN commmunity",
+    "title": "5  The Cloud-SPAN commmunity",
     "section": "",
-    "text": "6.1 Ways to contribute",
+    "text": "Ways to contribute",
     "crumbs": [
-      "<span class='chapter-number'>6</span>  <span class='chapter-title'>The Cloud-SPAN commmunity</span>"
+      "<span class='chapter-number'>5</span>  <span class='chapter-title'>The Cloud-SPAN commmunity</span>"
     ]
   },
   {
     "objectID": "contributing-guide.html#ways-to-contribute",
     "href": "contributing-guide.html#ways-to-contribute",
-    "title": "6  The Cloud-SPAN commmunity",
+    "title": "5  The Cloud-SPAN commmunity",
     "section": "",
-    "text": "Learn\n\nAttend or work through our Foundations in Genomics course.\n\n\n\nConnect\n\nJoin our Community of Practice.\n\n\n\nHelp\n\nTell us about bugs or problems you encounter in the course.\n\n\n\nExpand\n\nSuggest new/different software tools for analysis.\nContribute new examples.\nAttend one of our ’Train the Trainer” courses so you can take parts of the course back to teach at your home institution.",
+    "text": "Learn\n\nAttend or work through one of our courses.\n\n\n\nConnect\n\nJoin our Community of Practice.\nCome along to one of our code retreats to get help applying your skills and meet other researchers working in similar fields.\n\n\n\nHelp\n\nTell us about bugs or problems you encounter in the course.\n\n\n\nExpand\n\nSuggest new/different software tools for analysis.\nContribute new examples.\nAttend one of our ’Train the Trainer” courses so you can take parts of the course back to teach at your home institution.",
     "crumbs": [
-      "<span class='chapter-number'>6</span>  <span class='chapter-title'>The Cloud-SPAN commmunity</span>"
+      "<span class='chapter-number'>5</span>  <span class='chapter-title'>The Cloud-SPAN commmunity</span>"
     ]
   },
   {
     "objectID": "contributing-guide.html#using-github-to-contribute",
     "href": "contributing-guide.html#using-github-to-contribute",
-    "title": "6  The Cloud-SPAN commmunity",
-    "section": "6.2 Using GitHub to contribute",
-    "text": "6.2 Using GitHub to contribute\nWe use GitHub as a tool for managing version control (AKA keeping a record of the project’s development). This helps us stay accountable and transparent. It’s also one of the ways we are making steps towards adhering to the [FAIR Principles].\nIf you want to contribute any content such as an update to the course or a new example then via GitHub is the best place to get in contact. For lots more guidance about how to contribute via GitHub, read our GitHub Contribution Guide.\nGit (the programming language underlying Github) and Github can be a little intimidating at first but don’t worry, the team are here to hold your hand! 🤝",
+    "title": "5  The Cloud-SPAN commmunity",
+    "section": "Using GitHub to contribute",
+    "text": "Using GitHub to contribute\nWe use GitHub as a tool for managing version control (AKA keeping a record of the project’s development). This helps us stay accountable and transparent. It’s also one of the ways we are making steps towards adhering to the [FAIR Principles](#fair-principles).\nIf you want to contribute any content such as an update to the course or a new example then via GitHub is the best place to get in contact. For lots more guidance about how to contribute via GitHub, read our GitHub Contribution Guide.\nGit (the programming language underlying Github) and Github can be a little intimidating at first but don’t worry, the team are here to hold your hand! 🤝",
     "crumbs": [
-      "<span class='chapter-number'>6</span>  <span class='chapter-title'>The Cloud-SPAN commmunity</span>"
+      "<span class='chapter-number'>5</span>  <span class='chapter-title'>The Cloud-SPAN commmunity</span>"
     ]
   },
   {
     "objectID": "our-courses.html#metagenomics",
     "href": "our-courses.html#metagenomics",
-    "title": "4  Our Courses",
+    "title": "3  Our Courses",
     "section": "Metagenomics",
     "text": "Metagenomics\nMetagenomics teaches data analysis for metagenomics projects. It runs asynchronously with a mixture of taught sessions, offline self-study and drop-in sessions.\nTopics covered include:\n\nan introduction to metagenomics and what it can be used for\nperforming quality control on long and short reads\nimproving your assembly with polishing\nbinning into species/metagenome-assembled genomes (MAGs)\ntaxonomic assignment and functional annotation\n\nNo prior knowledge of the shell is required as this course includes two sessions of Prenomics material.",
     "crumbs": [
-      "<span class='chapter-number'>4</span>  <span class='chapter-title'>Our Courses</span>"
+      "<span class='chapter-number'>3</span>  <span class='chapter-title'>Our Courses</span>"
     ]
   },
   {
     "objectID": "our-courses.html#create-aws",
     "href": "our-courses.html#create-aws",
-    "title": "4  Our Courses",
+    "title": "3  Our Courses",
     "section": "Create Your Own AWS Instance",
     "text": "Create Your Own AWS Instance\nThis course shows you how to create and manage an Amazon Web Service instance like the ones used in all our courses, in order to:\n\nstudy course materials further\nperform more complex analyses on your own data.",
     "crumbs": [
-      "<span class='chapter-number'>4</span>  <span class='chapter-title'>Our Courses</span>"
+      "<span class='chapter-number'>3</span>  <span class='chapter-title'>Our Courses</span>"
     ]
   },
   {
     "objectID": "our-courses.html#core-r",
     "href": "our-courses.html#core-r",
-    "title": "4  Our Courses",
+    "title": "3  Our Courses",
     "section": "Core R",
     "text": "Core R\nThis short 2 hour course provides a whistle-stop tour of the R programming language and RStudio environment for total beginners. You will learn how to navigate RStudio, use the manual, import data and summarise/visualise it with a plot.",
     "crumbs": [
-      "<span class='chapter-number'>4</span>  <span class='chapter-title'>Our Courses</span>"
+      "<span class='chapter-number'>3</span>  <span class='chapter-title'>Our Courses</span>"
     ]
   },
   {
     "objectID": "our-courses.html#cloud-admin",
     "href": "our-courses.html#cloud-admin",
-    "title": "4  Our Courses",
+    "title": "3  Our Courses",
     "section": "Automated Management of AWS Instances",
     "text": "Automated Management of AWS Instances\nAutomated Management of AWS Instances is aimed at experienced command line users who have an interest in deploying and managing cloud resources for training purposes.\nNo prior knowledge of AWS concepts or tools is needed but learners should have significant experience with the Unix terminal and programming with Bash.",
     "crumbs": [
-      "<span class='chapter-number'>4</span>  <span class='chapter-title'>Our Courses</span>"
+      "<span class='chapter-number'>3</span>  <span class='chapter-title'>Our Courses</span>"
     ]
   },
   {
     "objectID": "our-courses.html#prenomics",
     "href": "our-courses.html#prenomics",
-    "title": "4  Our Courses",
+    "title": "3  Our Courses",
     "section": "",
     "text": "file directory structure\nlogging onto a cloud instance\nbasic shell commands\nusing the shell to manipulate and search files",
     "crumbs": [
-      "<span class='chapter-number'>4</span>  <span class='chapter-title'>Our Courses</span>"
+      "<span class='chapter-number'>3</span>  <span class='chapter-title'>Our Courses</span>"
+    ]
+  },
+  {
+    "objectID": "index.html#about-cloud-span",
+    "href": "index.html#about-cloud-span",
+    "title": "Cloud-SPAN Handbook",
+    "section": "About Cloud-SPAN",
+    "text": "About Cloud-SPAN\nCloud-SPAN deploys high quality learning resources that will train researchers to effectively generate and analyse a range of ’omics data using Cloud computing resources. Read more about our courses.\nCloud-SPAN is a collaboration between the Department of Biology at the University of York and the Software Sustainability Institute, and funded by the UKRI innovation scholars award under project reference MR/V038680/1.",
+    "crumbs": [
+      "<span class='chapter-number'>1</span>  <span class='chapter-title'>Introduction</span>"
+    ]
+  },
+  {
+    "objectID": "index.html#about-this-handbook",
+    "href": "index.html#about-this-handbook",
+    "title": "Cloud-SPAN Handbook",
+    "section": "About this handbook",
+    "text": "About this handbook\nThis handbook is intended as a reference for both the core Cloud-SPAN team (see below) and for our wider community of learners. It’s where you’ll find our Code of Conduct, contributing guidelines and other practical information which will help you make the most of our resources in a friendly, understanding environment.",
+    "crumbs": [
+      "<span class='chapter-number'>1</span>  <span class='chapter-title'>Introduction</span>"
+    ]
+  },
+  {
+    "objectID": "index.html#our-team",
+    "href": "index.html#our-team",
+    "title": "Cloud-SPAN Handbook",
+    "section": "Our Team",
+    "text": "Our Team\n\nProject team\n\n\n\nName\nRole\nInstitution\n\n\n\n\n\n\nEmma Rand\nProject oversight\nUni of York\n\n\n\n\nJorge Buenabad-Chavez\nCloud deliverer\nUni of York\n\n\n\n\nEvelyn Greeves\nFAIR Training Lead\nUni of York\n\n\n\n\nPasky Miranda\nResearch Training Lead\nUni of York\n\n\n\n\nSarah Dowsland\nProject Manager\nUni of York",
+    "crumbs": [
+      "<span class='chapter-number'>1</span>  <span class='chapter-title'>Introduction</span>"
+    ]
+  },
+  {
+    "objectID": "index.html#intro",
+    "href": "index.html#intro",
+    "title": "Cloud-SPAN Handbook",
+    "section": "Introduction",
+    "text": "Introduction\n\nAbout Cloud-SPAN\nCloud-SPAN deploys high quality learning resources that will train researchers to effectively generate and analyse a range of ’omics data using Cloud computing resources. Read more about our courses.\nCloud-SPAN is a collaboration between the Department of Biology at the University of York and the Software Sustainability Institute, and funded by the UKRI innovation scholars award under project reference MR/V038680/1.\n\n\nAbout this handbook\nThis handbook is intended as a reference for both the core Cloud-SPAN team (see below) and for our wider community of learners. It’s where you’ll find our Code of Conduct, contributing guidelines and other practical information which will help you make the most of our resources in a friendly, understanding environment.\n\n\nProject team\n\n\n\nName\nRole\nInstitution\n\n\n\n\n\n\nEmma Rand\nProject oversight\nUni of York\n\n\n\n\nJorge Buenabad-Chavez\nCloud deliverer\nUni of York\n\n\n\n\nEvelyn Greeves\nFAIR Training Lead\nUni of York\n\n\n\n\nPasky Miranda\nResearch Training Lead\nUni of York\n\n\n\n\nSarah Dowsland\nProject Manager\nUni of York",
+    "crumbs": [
+      "<span class='chapter-number'>1</span>  <span class='chapter-title'>Introduction</span>"
     ]
   }
 ]
\ No newline at end of file
diff --git a/_quarto.yml b/_quarto.yml
index d720a0e..674b66f 100644
--- a/_quarto.yml
+++ b/_quarto.yml
@@ -7,7 +7,6 @@ book:
   date: ""
   chapters:
     - index.qmd
-    - intro.qmd
     - code-of-conduct.qmd
     - our-courses.qmd
     - self-study.qmd
diff --git a/code-of-conduct.qmd b/code-of-conduct.qmd
index d9a21cf..a32bf58 100644
--- a/code-of-conduct.qmd
+++ b/code-of-conduct.qmd
@@ -5,9 +5,9 @@ number-depth: 1
 # Code of Conduct {#coc}
 
 ## Preamble
-The CloudSPAN team are dedicated to providing a welcoming and supportive environment for all people, regardless of background or identity. As such, we do not tolerate behaviour that is disrespectful to our community members or that excludes, intimidates, or causes discomfort to others. We do not tolerate discrimination or harassment based on characteristics that include, but are not limited to: gender identity and expression, sexual orientation, disability, physical appearance, body size, citizenship, nationality, ethnic or social origin, pregnancy, familial status, veteran status, genetic information, religion or belief (or lack thereof), membership of a national minority, property, age, education, socio-economic status, technical choices, and experience level.
+The Cloud-SPAN team are dedicated to providing a welcoming and supportive environment for all people, regardless of background or identity. As such, we do not tolerate behaviour that is disrespectful to our community members or that excludes, intimidates, or causes discomfort to others. We do not tolerate discrimination or harassment based on characteristics that include, but are not limited to: gender identity and expression, sexual orientation, disability, physical appearance, body size, citizenship, nationality, ethnic or social origin, pregnancy, familial status, veteran status, genetic information, religion or belief (or lack thereof), membership of a national minority, property, age, education, socio-economic status, technical choices, and experience level.
 
-Everyone who participates in CloudSPAN project activities is required to conform to this Code of Conduct. This Code of Conduct applies to all spaces managed by the CloudSPAN project including, but not limited to, in person focus groups and workshops, and communications online via GitHub. By participating, contributors indicate their acceptance of the procedures by which the project core development team resolves any Code of Conduct incidents, which may include storage and processing of their personal information.
+Everyone who participates in Cloud-SPAN project activities is required to conform to this Code of Conduct. This Code of Conduct applies to all spaces managed by the Cloud-SPAN project including, but not limited to, in person focus groups and workshops, and communications online via GitHub. By participating, contributors indicate their acceptance of the procedures by which the project core development team resolves any Code of Conduct incidents, which may include storage and processing of their personal information.
 
 ## Our Code of Conduct
 
@@ -25,10 +25,6 @@ We are confident that our community members will together build a supportive and
 
 - **Don’t be a bystander.** If you see something inappropriate happening, speak up. If you don’t feel comfortable intervening but feel someone should, please feel free to ask a member of the Code of Conduct response team for support.
 
-- As an overriding general rule, **please be intentional in your actions and humble in your mistakes**.
-
-All interactions should be professional regardless of platform: either online or in-person. See [this explanation of the four social rules](https://www.recurse.com/manual#sub-sec-social-rules) - no feigning surprise, no well-actually’s, no back-seat driving, no subtle -isms - for further recommendations for inclusive behaviours.
-
 ### Unacceptable Behaviour
 
 Examples of unacceptable behaviour by community members at any project event or platform include:
diff --git a/contributing-guide.qmd b/contributing-guide.qmd
index f179094..cdbcaaf 100644
--- a/contributing-guide.qmd
+++ b/contributing-guide.qmd
@@ -1,3 +1,7 @@
+---
+number-depth: 1
+---
+
 # The Cloud-SPAN commmunity {#community}
 
 ⚠️ **Under construction** ⚠️
@@ -20,27 +24,28 @@ Here are some ideas of ways you can contribute:
 
 ## Ways to contribute {#ways-to-contribute}
 
-### Learn {.unnumbered}
+### Learn
 
--   Attend or work through our Foundations in Genomics course.
+- Attend or work through one of our [courses](#courses).
 
-### Connect {.unnumbered}
+### Connect
 
--   Join our *Community of Practice*.
+- Join our *Community of Practice*.
+- Come along to one of our code retreats to get help applying your skills and meet other researchers working in similar fields.
 
-### Help {.unnumbered}
+### Help
 
--   Tell us about bugs or problems you encounter in the course.
+- Tell us about bugs or problems you encounter in the course.
 
-### Expand {.unnumbered}
+### Expand
 
--   Suggest new/different software tools for analysis.
--   Contribute new examples.
--   Attend one of our 'Train the Trainer" courses so you can take parts of the course back to teach at your home institution.
+- Suggest new/different software tools for analysis.
+- Contribute new examples.
+- Attend one of our 'Train the Trainer" courses so you can take parts of the course back to teach at your home institution.
 
 ## Using GitHub to contribute
 
-We use GitHub as a tool for managing version control (AKA keeping a record of the project's development). This helps us stay accountable and transparent. It's also one of the ways we are making steps towards adhering to the \[FAIR Principles\].
+We use GitHub as a tool for managing version control (AKA keeping a record of the project's development). This helps us stay accountable and transparent. It's also one of the ways we are making steps towards adhering to the [FAIR Principles\](#fair-principles).
 
 If you want to contribute any content such as an update to the course or a new example then via GitHub is the best place to get in contact. For lots more guidance about how to contribute via GitHub, read our [GitHub Contribution Guide](https://github.com/Cloud-SPAN/CloudSPAN-handbook/blob/main/CONTRIBUTING.md).
 
diff --git a/index.qmd b/index.qmd
index 2802e0f..9452ce2 100644
--- a/index.qmd
+++ b/index.qmd
@@ -1,16 +1,28 @@
 ---
-title: "Cloud-SPAN Handbook"
+title: "Introduction"
+number-depth: 0
 ---
 
 # Welcome! {.unnumbered}
 
 ![](images/cloud-span-logo-text.png) *Welcome to the [Cloud-SPAN](https://cloud-span.york.ac.uk/) handbook! It's great to have you here!*
 
-## Handbook Contents 📋 {.unnumbered}
+## Introduction {#intro}
 
-⭐ [Introduction](#intro)\
-🤝 [Code of Conduct](#coc)\
-🎓 [Our Courses](#courses)\
-✏️ [Self-studying our courses](#self-study)\
-👪 [The Cloud-SPAN Community](#community)\
-📌 [FAIR Principles](#fair-principles)
+### About Cloud-SPAN
+Cloud-SPAN deploys high quality learning resources that will train researchers to effectively generate and analyse a range of 'omics data using Cloud computing resources. [Read more about our courses](#courses).
+
+Cloud-SPAN is a collaboration between the [Department of Biology](https://www.york.ac.uk/biology/) at the University of York and the [Software Sustainability Institute](https://www.software.ac.uk/), and funded by the [UKRI innovation scholars award](https://www.ukri.org/news/initiatives-boost-health-and-bioscience-skills-and-industry/) under project reference [MR/V038680/1](https://gtr.ukri.org/projects?ref=MR%2FV038680%2F1).
+
+### About this handbook
+This handbook is intended as a reference for both the core Cloud-SPAN team (see below) and for our wider community of learners. It's where you'll find our [Code of Conduct](#coc), contributing guidelines and other practical information which will help you make the most of our resources in a friendly, understanding environment. 
+
+### Project team
+
+| Name | Role | Institution |
+|---|---|---|---|---|
+| Emma Rand | Project oversight | Uni of York |
+| Jorge Buenabad-Chavez | Cloud deliverer | Uni of York |
+| Evelyn Greeves | FAIR Training Lead | Uni of York |
+| Pasky Miranda | Research Training Lead | Uni of York |
+| Sarah Dowsland | Project Manager | Uni of York |
diff --git a/intro.qmd b/intro.qmd
deleted file mode 100644
index 9456519..0000000
--- a/intro.qmd
+++ /dev/null
@@ -1,26 +0,0 @@
----
-number-depth: 1
----
-
-# Introduction {#intro}
-
-Welcome to the Cloud-SPAN Community Handbook! It's great to have you here.
-
-## About Cloud-SPAN
-Cloud-SPAN deploys high quality learning resources that will train researchers to effectively generate and analyse a range of 'omics data using Cloud computing resources. [Read more about our courses](#courses).
-
-Cloud-SPAN is a collaboration between the [Department of Biology](https://www.york.ac.uk/biology/) at the University of York and the [Software Sustainability Institute](https://www.software.ac.uk/), and funded by the [UKRI innovation scholars award](https://www.ukri.org/news/initiatives-boost-health-and-bioscience-skills-and-industry/) under project reference [MR/V038680/1](https://gtr.ukri.org/projects?ref=MR%2FV038680%2F1).
-
-## About this handbook
-This handbook is intended as a reference for both the core Cloud-SPAN team (see below) and for our wider community of learners. It's where you'll find our [Code of Conduct](#coc), contributing guidelines and other practical information which will help you make the most of our resources in a friendly, understanding environment. 
-
-## Our Team
-### Project team
-
-| Name | Role | Institution |
-|---|---|---|---|---|
-| Emma Rand | Project oversight | Uni of York |
-| Jorge Buenabad-Chavez | Cloud deliverer | Uni of York |
-| Evelyn Greeves | FAIR Training Lead | Uni of York |
-| Pasky Miranda | Research Training Lead | Uni of York |
-| Sarah Dowsland | Project Manager | Uni of York |