From 94d951204e8b78dc56395c4bda661692e8524759 Mon Sep 17 00:00:00 2001
From: Vini Salazar <17276653+vinisalazar@users.noreply.github.com>
Date: Wed, 10 Dec 2025 14:28:11 +1100
Subject: [PATCH 1/9] Fix URL on git widget

---
 mkdocs.yml | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/mkdocs.yml b/mkdocs.yml
index db411f8a..956ac698 100644
--- a/mkdocs.yml
+++ b/mkdocs.yml
@@ -1,8 +1,8 @@
 
 site_name: MBITE Tutorials
 
-repo_name: melbournebioinformatics/MelBioInf_docs
-repo_url: https://github.com/melbournebioinformatics/MelBioInf_docs
+repo_name: melbournebioinformatics/melbournebioinformatics.github.io
+repo_url: https://github.com/melbournebioinformatics/melbournebioinformatics.github.io
 
 # Comment below - old universal analytics tracking. No longer used.
 # google_analytics: ['UA-21794901-5', 'www.melbournebioinformatics.org.au/tutorials/']

From 9f7082a17f9e92085fc6264af93c2c1da47a09c9 Mon Sep 17 00:00:00 2001
From: Vini Salazar <17276653+vinisalazar@users.noreply.github.com>
Date: Wed, 10 Dec 2025 14:39:31 +1100
Subject: [PATCH 2/9] Create index home page for tutorial part of the website

---
 docs/tutorials/index.md | 7 +++++++
 mkdocs.yml              | 2 +-
 2 files changed, 8 insertions(+), 1 deletion(-)
 create mode 100644 docs/tutorials/index.md

diff --git a/docs/tutorials/index.md b/docs/tutorials/index.md
new file mode 100644
index 00000000..33e749de
--- /dev/null
+++ b/docs/tutorials/index.md
@@ -0,0 +1,7 @@
+[![Melbourne Bioinformatics Logo](../img/melbioinf_logo.png)](https://www.melbournebioinformatics.org.au/)
+
+# Welcome to MBITE!
+
+MBITE stands for <u>**M**</u>elbourne <u>**BI**</u>oinformatics <u>**T**</u>raining and <u>**E**</u>ducation. These tutorials have been developed by bioinformaticians at MB, where they are regularly delivered as in-house or online workshops. They are also designed to be used for self-directed learning. Many of the training materials were developed for use on Galaxy Australia, enabling learners to easily transition from learning to doing their own data analysis.
+
+To get updates about or attend our workshops, check out our [Melbourne Bioinformatics Eventbrite page](https://www.eventbrite.com.au/o/melbourne-bioinformatics-13058846490).
diff --git a/mkdocs.yml b/mkdocs.yml
index 956ac698..128b7d93 100644
--- a/mkdocs.yml
+++ b/mkdocs.yml
@@ -41,7 +41,7 @@ extra_javascript:
 copyright: <a href="https://www.melbournebioinformatics.org.au/">Melbourne Bioinformatics – The University of Melbourne ©</a>
 
 nav:
-    - Home: 'index.md'
+    - Home: 'tutorials/index.md'
     - 'Popular':
         - 'Git for Researchers': 'https://melbournebioinformatics.github.io/intro-to-git/'
         - 'Intro to the Nectar Cloud': 'https://melbournebioinformatics.github.io/nectar-instances/'

From 4e23d68aa1dd66df8893dbca707db078e43da37a Mon Sep 17 00:00:00 2001
From: egmg726 <email.egail@gmail.com>
Date: Fri, 12 Dec 2025 13:26:05 +1100
Subject: [PATCH 3/9] change https to http

---
 overrides/header_footer.html | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/overrides/header_footer.html b/overrides/header_footer.html
index 8e246c7d..2d10cce6 100644
--- a/overrides/header_footer.html
+++ b/overrides/header_footer.html
@@ -33,7 +33,7 @@
     <div data-um-mega-menu='
 {
   "facultyName": "Melbourne Bioinformatics Training and Education (MBITE)",
-  "facultyHref": "https://mbite.mdhs.unimelb.edu.au/",
+  "facultyHref": "http://mbite.mdhs.unimelb.edu.au/",
   "external": false,
   "alt": "Melbourne Bioinformatics",
   "src": "img/melbioinf_logo.png",

From b42ab9cca5b554eb6f0e65b8da52470f1c7be0b0 Mon Sep 17 00:00:00 2001
From: egmg726 <email.egail@gmail.com>
Date: Fri, 12 Dec 2025 13:31:11 +1100
Subject: [PATCH 4/9] removed placeholder from training program

---
 overrides/training-program.html | 12 ++++++------
 1 file changed, 6 insertions(+), 6 deletions(-)

diff --git a/overrides/training-program.html b/overrides/training-program.html
index 5312d11f..1d39ca80 100644
--- a/overrides/training-program.html
+++ b/overrides/training-program.html
@@ -157,37 +157,37 @@ <h2>Timeline of Program</h2>
     <dt><strong>June</strong></dt>
   <dd>
     <p>
-      Placeholder
+      Facilitation of workshops
     </p>
   </dd>
       <dt><strong>July</strong></dt>
   <dd>
     <p>
-      Placeholder
+      Continured training in workshop development and draft proposals
     </p>
   </dd>
       <dt><strong>August</strong></dt>
   <dd>
     <p>
-      Placeholder
+      Additional facilitation and workshop development
     </p>
   </dd>
       <dt><strong>September</strong></dt>
   <dd>
     <p>
-      Placeholder
+      Training activities and workshop development
     </p>
   </dd>
       <dt><strong>October</strong></dt>
   <dd>
     <p>
-      Placeholder
+      Finalisation of student-led workshops
     </p>
   </dd>
       <dt><strong>November</strong></dt>
   <dd>
     <p>
-      Placeholder
+      Workshops take place
     </p>
   </dd>
       <dt><strong>December</strong></dt>

From c61ea9469f38ad8b02663fdb3a9f2d118780a4cd Mon Sep 17 00:00:00 2001
From: egmg726 <email.egail@gmail.com>
Date: Fri, 12 Dec 2025 13:32:39 +1100
Subject: [PATCH 5/9] adjust policy

---
 overrides/policy.html | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/overrides/policy.html b/overrides/policy.html
index 9f7a3f66..2901fa7f 100644
--- a/overrides/policy.html
+++ b/overrides/policy.html
@@ -51,7 +51,7 @@ <h3>2.3 De-prioritisation Process</h3>
 
 
 <h2>3. Cancellation Policy</h2>
-To avoid being marked as a no-show:
+<p>To avoid being marked as a no-show:</p>
 
 <ul>
   <li>Participants must cancel their registration at least 48 hours before the workshop start time.</li>

From bda269f7cb2a8359a8119cb4ce2ab5b966b81e90 Mon Sep 17 00:00:00 2001
From: egmg726 <email.egail@gmail.com>
Date: Mon, 15 Dec 2025 15:26:53 +1100
Subject: [PATCH 6/9] add proteomics workshop

---
 overrides/training-materials.html | 20 ++++++++++++++++++++
 1 file changed, 20 insertions(+)

diff --git a/overrides/training-materials.html b/overrides/training-materials.html
index d2323b26..0aa51af3 100644
--- a/overrides/training-materials.html
+++ b/overrides/training-materials.html
@@ -408,6 +408,26 @@ <h2>Transcriptomics</h2>
   </div>
 </div>
 
+<hr>
+<div class="filtered-listing-section clearfix" data-section="proteomics">
+  <div class="aside">
+    <h2>Proteomics</h2>
+    <p>
+      Tutorials for analysing proteomic data
+    </p>
+  </div>
+  <div class="bside">
+    <ul class="filtered-listing-grid">
+      <li class="filtered-listing-item" data-tag="r">
+        <a href="https://mbite.org/intro-to-proteomics/">
+          R
+          <strong>Introduction to Proteomics</strong>
+        </a>
+      </li>
+    </ul>
+  </div>
+</div>
+
 
 <hr>
 <div class="filtered-listing-section clearfix" data-section="statistics-visualisation">

From 99f1081b7dad27b1cd1c3a50727a7c898e3224d4 Mon Sep 17 00:00:00 2001
From: egmg726 <email.egail@gmail.com>
Date: Mon, 15 Dec 2025 15:29:41 +1100
Subject: [PATCH 7/9] removed FAQ from checklist

---
 overrides/checklist_2.html | 7 +------
 1 file changed, 1 insertion(+), 6 deletions(-)

diff --git a/overrides/checklist_2.html b/overrides/checklist_2.html
index 79a2c41a..e99633fd 100644
--- a/overrides/checklist_2.html
+++ b/overrides/checklist_2.html
@@ -220,14 +220,9 @@ <h3>Common issues</h3>
 <br><br>
 
 <!-- ========================================================= -->
-<!-- FAQ (unchanged except formatting) -->
+<!-- FAQ (removed) -->
 <!-- ========================================================= -->
 
-<h2>Frequently Asked Questions</h2>
 
-<ul class="accordion">
-  <!-- your accordion content stays the same -->
-  {{ accordion_html|safe }}
-</ul>
 
 {% endblock %}

From 7ce00fea6988a4ebd2075adc8b99c529b9a5d64d Mon Sep 17 00:00:00 2001
From: egmg726 <email.egail@gmail.com>
Date: Mon, 15 Dec 2025 15:31:43 +1100
Subject: [PATCH 8/9] changed home link to mbite

---
 overrides/header_footer.html | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/overrides/header_footer.html b/overrides/header_footer.html
index 2d10cce6..abeff788 100644
--- a/overrides/header_footer.html
+++ b/overrides/header_footer.html
@@ -33,7 +33,7 @@
     <div data-um-mega-menu='
 {
   "facultyName": "Melbourne Bioinformatics Training and Education (MBITE)",
-  "facultyHref": "http://mbite.mdhs.unimelb.edu.au/",
+  "facultyHref": "https://mbite.org/",
   "external": false,
   "alt": "Melbourne Bioinformatics",
   "src": "img/melbioinf_logo.png",

From bd45392f6b1112712bcb5b73780501a02e75d9ed Mon Sep 17 00:00:00 2001
From: Vini Salazar <17276653+vinisalazar@users.noreply.github.com>
Date: Mon, 15 Dec 2025 19:37:06 +1100
Subject: [PATCH 9/9] Fix typo

good bot

Co-authored-by: Copilot <175728472+Copilot@users.noreply.github.com>
---
 overrides/training-program.html | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/overrides/training-program.html b/overrides/training-program.html
index 1d39ca80..deb8a265 100644
--- a/overrides/training-program.html
+++ b/overrides/training-program.html
@@ -163,7 +163,7 @@ <h2>Timeline of Program</h2>
       <dt><strong>July</strong></dt>
   <dd>
     <p>
-      Continured training in workshop development and draft proposals
+      Continued training in workshop development and draft proposals
     </p>
   </dd>
       <dt><strong>August</strong></dt>