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core/core.html

@@ -812,7 +812,7 @@ <h2 class="anchored" data-anchor-id="week-11-core-3-research-compendia-and-repro
 <footer class="footer">
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-<p>Rand E (2023). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
+<p>Rand E (2024). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
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core/week-1/overview.html

@@ -810,7 +810,7 @@ <h3 class="anchored" data-anchor-id="instructions">Instructions</h3>
 <footer class="footer">
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-<p>Rand E (2023). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
+<p>Rand E (2024). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
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core/week-1/study_after_workshop.html

@@ -799,7 +799,7 @@ <h2 class="anchored" data-anchor-id="msc-bioinformatics-students-doing-bio00070m
 <footer class="footer">
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-<p>Rand E (2023). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
+<p>Rand E (2024). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
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core/week-1/study_before_workshop.html

@@ -783,7 +783,7 @@ <h1 class="title">Independent Study to prepare for workshop</h1>
 <footer class="footer">
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-<p>Rand E (2023). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
+<p>Rand E (2024). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
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core/week-1/workshop.html

@@ -627,7 +627,7 @@ <h1>🥳 Well Done! 🎉</h1>
 <section id="independent-study-following-the-workshop" class="level1">
 <h1>Independent study following the workshop</h1>
 <p><a href="../../core/week-1/study_after_workshop.html">Consolidate</a></p>
-<p>Pages made with R <span class="citation" data-cites="R-core">(<a href="#ref-R-core" role="doc-biblioref">R Core Team 2023</a>)</span>, Quarto <span class="citation" data-cites="allaire2022">(<a href="#ref-allaire2022" role="doc-biblioref">Allaire et al. 2022</a>)</span>, <code>knitr</code> <span class="citation" data-cites="knitr">(<a href="#ref-knitr" role="doc-biblioref">Xie 2022</a>)</span>, <code>kableExtra</code> <span class="citation" data-cites="kableExtra">(<a href="#ref-kableExtra" role="doc-biblioref">Zhu 2021</a>)</span></p>
+<p>Pages made with R <span class="citation" data-cites="R-core">(<a href="#ref-R-core" role="doc-biblioref">R Core Team 2024</a>)</span>, Quarto <span class="citation" data-cites="allaire2022">(<a href="#ref-allaire2022" role="doc-biblioref"><strong>allaire2022?</strong></a>)</span>, <code>knitr</code> <span class="citation" data-cites="knitr">(<a href="#ref-knitr" role="doc-biblioref"><strong>knitr?</strong></a>)</span>, <code>kableExtra</code> <span class="citation" data-cites="kableExtra">(<a href="#ref-kableExtra" role="doc-biblioref">Zhu 2021</a>)</span></p>
 </section>
 <section id="references" class="level1">
 
@@ -637,9 +637,6 @@ <h1>Independent study following the workshop</h1>
 </section>
 
 <div id="quarto-appendix" class="default"><section class="quarto-appendix-contents" role="doc-bibliography" id="quarto-bibliography"><h2 class="anchored quarto-appendix-heading">References</h2><div id="refs" class="references csl-bib-body hanging-indent" data-entry-spacing="0" role="list">
-<div id="ref-allaire2022" class="csl-entry" role="listitem">
-Allaire, J. J., Charles Teague, Carlos Scheidegger, Yihui Xie, and Christophe Dervieux. 2022. <em>Quarto</em>. <a href="https://doi.org/10.5281/zenodo.5960048">https://doi.org/10.5281/zenodo.5960048</a>.
-</div>
 <div id="ref-baggerly2009" class="csl-entry" role="listitem">
 Baggerly, Keith A, and Kevin R Coombes. 2009. <span>“DERIVING CHEMOSENSITIVITY FROM CELL LINES: FORENSIC BIOINFORMATICS AND REPRODUCIBLE RESEARCH IN HIGH-THROUGHPUT BIOLOGY.”</span> <em>Ann. Appl. Stat.</em> 3 (4): 1309–34. <a href="https://doi.org/10.2307/27801549">https://doi.org/10.2307/27801549</a>.
 </div>
@@ -656,13 +653,10 @@ <h1>Independent study following the workshop</h1>
 Ostblom, Joel. 2019. <em>Session<span>_</span>info</em>. <a href="https://gitlab.com/joelostblom/session_info">https://gitlab.com/joelostblom/session_info</a>.
 </div>
 <div id="ref-R-core" class="csl-entry" role="listitem">
-R Core Team. 2023. <em>R: A Language and Environment for Statistical Computing</em>. Vienna, Austria: R Foundation for Statistical Computing. <a href="https://www.R-project.org/">https://www.R-project.org/</a>.
+R Core Team. 2024. <em>R: A Language and Environment for Statistical Computing</em>. Vienna, Austria: R Foundation for Statistical Computing. <a href="https://www.R-project.org/">https://www.R-project.org/</a>.
 </div>
 <div id="ref-sessioninfo" class="csl-entry" role="listitem">
-Wickham, Hadley, Winston Chang, Robert Flight, Kirill Müller, and Jim Hester. 2021. <span>“Sessioninfo: R Session Information.”</span>
-</div>
-<div id="ref-knitr" class="csl-entry" role="listitem">
-Xie, Yihui. 2022. <span>“Knitr: A General-Purpose Package for Dynamic Report Generation in r.”</span> <a href="https://yihui.org/knitr/">https://yihui.org/knitr/</a>.
+Wickham, Hadley, Winston Chang, Robert Flight, Kirill Müller, and Jim Hester. 2021. <em>Sessioninfo: R Session Information</em>. <a href="https://github.com/r-lib/sessioninfo#readme">https://github.com/r-lib/sessioninfo#readme</a>.
 </div>
 <div id="ref-kableExtra" class="csl-entry" role="listitem">
 Zhu, Hao. 2021. <span>“kableExtra: Construct Complex Table with ’Kable’ and Pipe Syntax.”</span> <a href="https://CRAN.R-project.org/package=kableExtra">https://CRAN.R-project.org/package=kableExtra</a>.
@@ -1097,7 +1091,7 @@ <h1>Independent study following the workshop</h1>
 <footer class="footer">
   <div class="nav-footer">
     <div class="nav-footer-left">
-<p>Rand E (2023). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
+<p>Rand E (2024). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
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core/week-11/overview.html

@@ -813,7 +813,7 @@ <h3 class="anchored" data-anchor-id="instructions">Instructions</h3>
 <footer class="footer">
   <div class="nav-footer">
     <div class="nav-footer-left">
-<p>Rand E (2023). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
+<p>Rand E (2024). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
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     <div class="nav-footer-center">
 

core/week-11/study_after_workshop.html

@@ -780,7 +780,7 @@ <h1 class="title">Independent Study to consolidate this week</h1>
 <footer class="footer">
   <div class="nav-footer">
     <div class="nav-footer-left">
-<p>Rand E (2023). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
+<p>Rand E (2024). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
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core/week-11/workshop.html

@@ -420,20 +420,14 @@ <h1 class="title">Workshop</h1>
 </section><section id="the-code-file" class="level1"><h1>The Code file</h1>
 <p>These contain all the code needed in the workshop even where it is not visible on the webpage.</p>
 <p>The <a href="../../core/week-11/workshop.html">workshop.qmd</a> file is the file I use to compile the practical. Qmd stands for Quarto markdown. It allows code and ordinary text to be interleaved to produce well-formatted reports including webpages. Right-click on the link and choose Save-As to download. You will be able to open the Qmd file in RStudio. Alternatively, <a href="https://github.com/3mmaRand/BIO00088H-data/core/week-11/workshop.qmd">View in Browser</a>. Coding and thinking answers are marked with <code>#---CODING ANSWER---</code> and <code>#---THINKING ANSWER---</code></p>
-<p>Pages made with R <span class="citation" data-cites="R-core">(<a href="#ref-R-core" role="doc-biblioref">R Core Team 2023</a>)</span>, Quarto <span class="citation" data-cites="allaire2022">(<a href="#ref-allaire2022" role="doc-biblioref">Allaire et al. 2022</a>)</span>, <code>knitr</code> <span class="citation" data-cites="knitr">(<a href="#ref-knitr" role="doc-biblioref">Xie 2022</a>)</span>, <code>kableExtra</code> <span class="citation" data-cites="kableExtra">(<a href="#ref-kableExtra" role="doc-biblioref">Zhu 2021</a>)</span></p>
+<p>Pages made with R <span class="citation" data-cites="R-core">(<a href="#ref-R-core" role="doc-biblioref">R Core Team 2024</a>)</span>, Quarto <span class="citation" data-cites="allaire2022">(<a href="#ref-allaire2022" role="doc-biblioref"><strong>allaire2022?</strong></a>)</span>, <code>knitr</code> <span class="citation" data-cites="knitr">(<a href="#ref-knitr" role="doc-biblioref"><strong>knitr?</strong></a>)</span>, <code>kableExtra</code> <span class="citation" data-cites="kableExtra">(<a href="#ref-kableExtra" role="doc-biblioref">Zhu 2021</a>)</span></p>
 </section><section id="references" class="level1">
 
 
 
 </section><div id="quarto-appendix" class="default"><section class="quarto-appendix-contents" role="doc-bibliography" id="quarto-bibliography"><h2 class="anchored quarto-appendix-heading">References</h2><div id="refs" class="references csl-bib-body hanging-indent" data-entry-spacing="0" role="list">
-<div id="ref-allaire2022" class="csl-entry" role="listitem">
-Allaire, J. J., Charles Teague, Carlos Scheidegger, Yihui Xie, and Christophe Dervieux. 2022. <em>Quarto</em>. <a href="https://doi.org/10.5281/zenodo.5960048">https://doi.org/10.5281/zenodo.5960048</a>.
-</div>
 <div id="ref-R-core" class="csl-entry" role="listitem">
-R Core Team. 2023. <em>R: A Language and Environment for Statistical Computing</em>. Vienna, Austria: R Foundation for Statistical Computing. <a href="https://www.R-project.org/">https://www.R-project.org/</a>.
-</div>
-<div id="ref-knitr" class="csl-entry" role="listitem">
-Xie, Yihui. 2022. <span>“Knitr: A General-Purpose Package for Dynamic Report Generation in r.”</span> <a href="https://yihui.org/knitr/">https://yihui.org/knitr/</a>.
+R Core Team. 2024. <em>R: A Language and Environment for Statistical Computing</em>. Vienna, Austria: R Foundation for Statistical Computing. <a href="https://www.R-project.org/">https://www.R-project.org/</a>.
 </div>
 <div id="ref-kableExtra" class="csl-entry" role="listitem">
 Zhu, Hao. 2021. <span>“kableExtra: Construct Complex Table with ’Kable’ and Pipe Syntax.”</span> <a href="https://CRAN.R-project.org/package=kableExtra">https://CRAN.R-project.org/package=kableExtra</a>.
@@ -866,7 +860,7 @@ <h1 class="title">Workshop</h1>
 </div> <!-- /content -->
 <footer class="footer"><div class="nav-footer">
     <div class="nav-footer-left">
-<p>Rand E (2023). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
+<p>Rand E (2024). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
 </div>   
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core/week-2/overview.html

@@ -810,7 +810,7 @@ <h3 class="anchored" data-anchor-id="instructions">Instructions</h3>
 <footer class="footer">
   <div class="nav-footer">
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-<p>Rand E (2023). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
+<p>Rand E (2024). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
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core/week-2/study_after_workshop.html

@@ -780,7 +780,7 @@ <h1>bbbb</h1>
 <footer class="footer">
   <div class="nav-footer">
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-<p>Rand E (2023). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
+<p>Rand E (2024). Data Analysis for Group Project. <a href="https://3mmarand.github.io/BIO00088H-data/" class="uri">https://3mmarand.github.io/BIO00088H-data/</a>.</p>
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