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microbiome · Dec 18, 2024 · 417bea9 · 417bea9
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diff --git a/docs/datacontainers_files/figure-revealjs/data_and_data_container-1.png b/docs/datacontainers_files/figure-revealjs/data_and_data_container-1.png
diff --git a/docs/datacontainers_files/figure-revealjs/pages_and_book-1.png b/docs/datacontainers_files/figure-revealjs/pages_and_book-1.png
diff --git a/docs/datacontainers_files/figure-revealjs/se_field-1.png b/docs/datacontainers_files/figure-revealjs/se_field-1.png
diff --git a/docs/hintikkaxo_presentation_files/figure-revealjs/unnamed-chunk-13-1.png b/docs/hintikkaxo_presentation_files/figure-revealjs/unnamed-chunk-13-1.png
diff --git a/docs/intro.html b/docs/intro.html
@@ -402,7 +402,7 @@ <h2>Teaching material</h2>
 <h2>Support</h2>
 <ul>
 <li><p>Post-it stickers</p></li>
-<li><p>Online chat (Gitter) <a href="https://gitter.im/microbiome/miaverse" class="uri">https://gitter.im/microbiome/miaverse</a></p></li>
+<li><p>Online chat (GitHub Discussions) <a href="https://github.com/microbiome/OMA/discussions" class="uri">https://github.com/microbiome/OMA/discussions</a></p></li>
 <li><p><a href="https://docs.google.com/document/d/1CEQ2d5g-zMoANhtHGbcKbW4DhElovPHz6iChjSX6Md8/edit?usp=sharing">Google Doc</a> <strong>Questions at the end of the gdoc are welcome</strong></p></li>
 <li><p>Feedback at the end of each day using minute cards</p></li>
 </ul>

diff --git a/docs/oma_files/figure-revealjs/data_and_data_container-1.png b/docs/oma_files/figure-revealjs/data_and_data_container-1.png
diff --git a/docs/oma_files/figure-revealjs/pages_and_book-1.png b/docs/oma_files/figure-revealjs/pages_and_book-1.png
diff --git a/docs/oma_files/figure-revealjs/se_field-1.png b/docs/oma_files/figure-revealjs/se_field-1.png
diff --git a/docs/quarto.html b/docs/quarto.html
@@ -516,7 +516,7 @@ <h2>Example 2.3: YAML Parameters</h2>
 <p>editor: visual</p>
 <p>smaller: true</p>
 <p>author: Escherichia coli</p>
-<p>date: 2024-12-17</p>
+<p>date: 2024-12-18</p>
 <p><code>---</code></p>
 </section>
 <section id="exercise-2" class="slide level2">

diff --git a/docs/search.json b/docs/search.json
@@ -991,7 +991,7 @@
     "href": "intro.html#support",
     "title": "Intro & practicals",
     "section": "Support",
-    "text": "Support\n\nPost-it stickers\nOnline chat (Gitter) https://gitter.im/microbiome/miaverse\nGoogle Doc Questions at the end of the gdoc are welcome\nFeedback at the end of each day using minute cards"
+    "text": "Support\n\nPost-it stickers\nOnline chat (GitHub Discussions) https://github.com/microbiome/OMA/discussions\nGoogle Doc Questions at the end of the gdoc are welcome\nFeedback at the end of each day using minute cards"
   },
   {
     "objectID": "intro.html#other-points",
@@ -1579,7 +1579,7 @@
     "href": "quarto.html#example-2.3-yaml-parameters",
     "title": "Reproducible Reporting with Quarto",
     "section": "Example 2.3: YAML Parameters",
-    "text": "Example 2.3: YAML Parameters\nAt the beginning of any Quarto document, there is a box delimited by ---. There you can define document metadata, such as title, author, date, output format, bibliography, citation style, theme, font size and many others.\n---\ntitle: “Around the gut in 24 hours”\nformat: html\neditor: visual\nsmaller: true\nauthor: Escherichia coli\ndate: 2024-12-17\n---"
+    "text": "Example 2.3: YAML Parameters\nAt the beginning of any Quarto document, there is a box delimited by ---. There you can define document metadata, such as title, author, date, output format, bibliography, citation style, theme, font size and many others.\n---\ntitle: “Around the gut in 24 hours”\nformat: html\neditor: visual\nsmaller: true\nauthor: Escherichia coli\ndate: 2024-12-18\n---"
   },
   {
     "objectID": "quarto.html#exercise-2",

diff --git a/quarto/intro.qmd b/quarto/intro.qmd
@@ -1,12 +1,11 @@
 ---
 title: "Intro & practicals"
 format: revealjs
-editor: visual
 ---
 
 ## Learning goals {.smaller}
 
-::: columns
+::::: columns
 ::: {.column width="70%"}
 **Introduction to R/Bioconductor, a popular open-source environment for life science informatics, with a focus on microbiome analysis**
 
@@ -22,19 +21,16 @@ After the course, you will know how to:
 ::: {.column width="30%"}
 ![Moreno-Indias et al. (2021) Statistical and Machine Learning Techniques in Human Microbiome Studies: Contemporary Challenges and Solutions. Frontiers in Microbiology.](images/paste-DD45BC4A.png)
 :::
-:::
-
+:::::
 
 ## Target audience
 
-
 -   Advanced MSc, PhD & postdoctoral researchers who wish to learn new skills in scientific programming
 
 -   Earlier experience with R is expected
 
 ![](images/bioconductor_logo_rgb.jpg){width="200"}
 
-
 Welcome!
 
 ## Code of Conduct {.smaller}
@@ -55,7 +51,6 @@ By participating in this community, you agree not to engage in behavior contrary
 
 For the full CoC, see: [https://bioconductor.github.io/bioc_coc_multilingual](https://bioconductor.github.io/bioc_coc_multilingual/)
 
-
 ## Schedule
 
 -   Day 1: data science framework
@@ -86,15 +81,14 @@ For the full CoC, see: [https://bioconductor.github.io/bioc_coc_multilingual](ht
 
 -   Post-it stickers
 
--   Online chat (Gitter) <https://gitter.im/microbiome/miaverse>
+-   Online chat (GitHub Discussions) <https://github.com/microbiome/OMA/discussions>
 
 -   [Google Doc](https://docs.google.com/document/d/1CEQ2d5g-zMoANhtHGbcKbW4DhElovPHz6iChjSX6Md8/edit?usp=sharing) **Questions at the end of the gdoc are welcome**
 
 -   Feedback at the end of each day using minute cards
 
 ![](images/paste-345FB942.png){width="282"}
 
-
 ## Other points
 
 -   Basic vs. advanced groups