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<!DOCTYPE html>
<html lang="en"><head>
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<meta name="author" content=" Dax Kellie, Martin Westgate @daxkellie">
<title> How to make a shareable code workflow for reproducible and efficient science </title>
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<section id="title-slide" data-background-color="#fde5ce" data-background-image="images/title-trees.png" data-background-opacity="0.3" data-background-size="cover" class="quarto-title-block center">
<h1 class="title"><span style="font-size: 3.7rem;"> How to make a shareable code workflow for reproducible and efficient science </span><br></h1>
<div class="quarto-title-authors">
<div class="quarto-title-author">
<div class="quarto-title-author-name">
<br><b>Dax Kellie</b>, Martin Westgate <br> <img data-src="images/logos/ALA_Logo.png" style="width: auto; height: 100px; margin-top: 50px; padding-left: 20px; padding-right: 20px"> <img data-src="images/logos/NCRIS_logo.png" style="width: auto; height: 100px; margin-top: 50px; padding-left: 20px; padding-right: 20px"> <img data-src="images/logos/CSIRO_logo.png" style="width: auto; height: 100px; margin-top: 50px; padding-left: 20px; padding-right: 20px"> <br> <i class="fa-brands fa-twitter fa-lg" aria-label="twitter"></i> <span style="font-size: 2.5rem;"><span class="citation" data-cites="daxkellie">@daxkellie</span></span>
</div>
</div>
</div>
</section>
<section id="acknowledgement" class="slide level2" data-menu-title="Acknowledgement" data-background-image="images/square-rock.jpg" data-background-opacity="0.3">
<h2></h2>
<br><br>
<center>
<span style="color:#000000;">I acknowledge the Traditional Owners of the lands on which I live and work, the Ngunnawal people, and pay my respects to Elders past and present. I recognise the significance of this environment to Traditional Owners, and acknowledge their continuing connection to Country.</span>
</center>
<aside><div>
<div style="font-size: 60%; color: #000000;">
<p>Square Rock, Namadgi National Park, Ngunnawal Country</p>
</div>
</div></aside></section>
<section>
<section id="the-replication-crisis" class="title-slide slide level1 center" data-background-color="#536e4e" style="color: #ffffff; font-size: 170%" data-transition="fade">
<h1>The replication crisis</h1>
</section>
<section id="psychology-in-crisis" class="slide level2">
<h2>Psychology in crisis?</h2>
<div class="columns">
<div class="column" style="width:60%;">
<p><img data-src="images/oa_2015.jpeg"></p>
</div><div class="column" style="width:40%;">
<p><br><span style="font-size: 2.5rem">Of 100 replicated studies, only 39 replicated the original result</span></p>
</div>
</div>
<aside><div>
<div style="font-size: 60%;">
<p><a href="https://www.science.org/doi/full/10.1126/science.aac4716">Open Science Collaboration (2015). Estimating the Reproducibility of Psychological Science. <em>Science</em></a></p>
</div>
</div></aside></section>
<section id="biology-ecology-in-crisis" class="slide level2">
<h2>Biology & ecology in crisis?</h2>
<div style="font-size:80%;">
<p>Evolutionary biology & ecology research is not immune to wider issues of scientific research</p>
<center>
<img data-src="images/fraser_qrp.png" height="390">
</center>
<p>Questionable Research Practices are prevalent but usually unintentional</p>
</div>
<aside><div>
<div style="font-size: 60%;">
<p><a href="https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0200303">Fraser et al (2018). Questionable research practices in ecology and evolution. <em>PLOS ONE</em></a></p>
</div>
</div></aside></section></section>
<section>
<section id="reproducibility" class="title-slide slide level1 center" data-background-color="#536e4e" data-auto-animate="true" data-transition="fade" style="color: #ffffff; font-size: 170%">
<h1 data-id="quarto-animate-title">Reproducibility</h1>
</section>
<section id="available-data-and-code" class="slide level2">
<h2>Available data <em>and</em> code?</h2>
<div class="columns">
<div class="column" style="width:50%;">
<center>
<img data-src="images/culina_2020b.png" style="padding-top: 15px;" height="400">
</center>
</div><div class="column" style="width:50%;">
<div class="fragment fade-in" data-fragment-index="1">
<center>
<img data-src="images/culina_2020a.png" style="padding-top: 15px;" height="400">
</center>
</div>
</div>
</div>
<div class="fragment fade-in" data-fragment-index="1">
<p><span style="font-size:2rem;">Without knowing how someone cleaned & edited their data, even with data, reproducing a result is difficult</span></p>
</div>
<aside><div>
<div style="font-size: 60%;">
<p><a href="https://www.sciencedirect.com/science/article/pii/S0169534716300957?via%3Dihub">Culina et al (2020). Low availability of code in ecology: A call for urgent action. <em>PLOS Biology</em></a></p>
</div>
</div></aside></section>
<section id="available-code-doesnt-guarantee-reproducibility" class="slide level2">
<h2>Available code doesn’t guarantee reproducibility</h2>
<p>Of 62 Registered Reports from Center of Open Science database:</p>
<ul>
<li>37 had scripts available (60%)</li>
<li>31 scripts could be run</li>
<li><strong>21 could reproduce main results <br>(34% of total, 57% of scripts)</strong></li>
</ul>
<aside><div>
<div style="font-size: 60%;">
<p><a href="http://journals.sagepub.com/doi/10.1177/2515245920918872">Obels et al (2020). Analysis of Open Data and Computational Reproducibility in Registered Reports in Psychology. <em>Advances in Methods and Practices in Psychological Science</em></a></p>
</div>
</div></aside></section></section>
<section>
<section id="reproducibility-is-hard" class="title-slide slide level1 center" data-background-color="#536e4e" data-auto-animate="true" data-transition="fade" style="color: #ffffff; font-size: 170%; text-align:center;">
<h1 data-id="quarto-animate-title">Reproducibility is hard</h1>
<center>
<img data-src="images/oh_no.png" height="300">
</center>
</section>
<section id="supporting-reproducibility-at-the-ala" class="slide level2">
<h2>Supporting reproducibility at the ALA</h2>
<div class="columns">
<div class="column" style="width:50%;">
<center>
<p><strong>galah</strong></p>
<p><img data-src="images/galah_logo.png" height="300"></p>
<a href="https://galah.ala.org.au/">https://galah.ala.org.au/</a>
</center>
</div><div class="column" style="width:50%;">
<center>
<p><strong>ALA Labs</strong></p>
<p><img data-src="images/twitter-card-preview_frog-small.png" height="300"></p>
<a href="https://labs.ala.org.au/">https://labs.ala.org.au/</a>
</center>
</div>
</div>
</section>
<section id="supporting-reproducibility-at-the-ala-1" class="slide level2">
<h2>Supporting reproducibility at the ALA</h2>
<div class="columns">
<div class="column" style="width:50%;">
<center>
<strong>galah</strong>
</center>
<p><br></p>
<div class="cell">
<div class="sourceCode cell-code" id="cb1"><pre class="sourceCode numberSource r number-lines code-with-copy"><code class="sourceCode r"><span id="cb1-1"><a href="#cb1-1"></a><span class="fu">library</span>(galah)</span>
<span id="cb1-2"><a href="#cb1-2"></a></span>
<span id="cb1-3"><a href="#cb1-3"></a><span class="fu">galah_call</span>() <span class="sc">|></span></span>
<span id="cb1-4"><a href="#cb1-4"></a> <span class="fu">galah_identify</span>(<span class="st">"reptilia"</span>) <span class="sc">|></span></span>
<span id="cb1-5"><a href="#cb1-5"></a> <span class="fu">galah_filter</span>(year <span class="sc">></span> <span class="dv">2020</span>) <span class="sc">|></span></span>
<span id="cb1-6"><a href="#cb1-6"></a> <span class="fu">atlas_occurrences</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
<p><br><br></p>
<p><a href="https://galah.ala.org.au/">https://galah.ala.org.au/</a></p>
</div><div class="column" style="width:50%;">
<center>
<p><strong>ALA Labs</strong></p>
<p><img data-src="images/labs_preview.png" height="300"></p>
<a href="https://labs.ala.org.au/">https://labs.ala.org.au/</a>
</center>
</div>
</div>
</section>
<section id="the-invisible-workload-of-open-research" class="slide level2">
<h2>The invisible workload of open research</h2>
<p><span style="font-size:2rem;">With growing pressure from peers but little change from institutions of how research output is judged, open science is an intimidating amount of work</span></p>
<center>
<img data-src="images/oh_no_success.jpg" height="300">
</center>
<aside><div>
<div style="font-size: 50%;">
<p><a href="https://webcomicname.com/">Alex Norris, webcomicname.com</a><br>
</p>
<p><a href="https://journal.trialanderror.org/pub/the-invisible-workload">Hostler (2023). The invisible workload of open research. <em>Journal of Trial & Error</em></a></p>
</div>
</div></aside></section></section>
<section id="small-steps-to-improve-reproducibility-with-big-impacts" class="title-slide slide level1 center" data-background-color="#536e4e" data-auto-animate="true" data-transition="fade" style="color: #ffffff; font-size: 150%">
<h1 data-id="quarto-animate-title">Small steps <br> to improve reproducibility* <br> with big impacts</h1>
<div style="color: #ffffff; font-size: 50%">
<p><br><b>*of code, mostly</b><br></p>
</div>
</section>
<section>
<section id="aim-to-make-your-work-environment-shareable" class="title-slide slide level1 center" data-background-color="#5D2E46" data-transition="fade" style="color: #ffffff; font-size: 120%">
<h1>1. Aim to make your work environment shareable</h1>
</section>
<section id="when-loading-a-work-environment" class="slide level2" data-background-color="#F8F1F5" style="font-size: 80%">
<h2>When loading a work environment…</h2>
<div style="font-size: 120%;">
<p><br><br> This works…</p>
<div class="cell">
<div class="sourceCode cell-code" id="cb2"><pre class="sourceCode numberSource r number-lines code-with-copy"><code class="sourceCode r"><span id="cb2-1"><a href="#cb2-1"></a><span class="fu">rm</span>(<span class="at">list =</span> <span class="fu">ls</span>())</span>
<span id="cb2-2"><a href="#cb2-2"></a><span class="fu">setwd</span>(<span class="st">"C:/Users/DaxKellie/OneDrive/Documents/ALA/Talks/ESA2023"</span>)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
<p><br><br> …but usually only on <em>your</em> computer</p>
</div>
</section>
<section id="r-projects" class="slide level2" data-background-color="#F8F1F5" style="font-size: 80%">
<h2>R Projects</h2>
<div class="columns">
<div class="column" style="width:50%;">
<p><img data-src="images/r-project_1.png" height="300"></p>
</div><div class="column" style="width:50%;">
<div class="fragment fade-in" data-fragment-index="1">
<p><img data-src="images/r-project_2.png" height="300"></p>
</div>
</div>
</div>
<aside><div>
<div style="font-size: 70%;">
<p>Images from <a href="https://here.r-lib.org/"><em>R for Non-Programmers</em> by Daniel Dauber</a></p>
</div>
</div></aside></section>
<section id="r-projects-1" class="slide level2" data-background-color="#F8F1F5" style="font-size: 80%">
<h2>R Projects</h2>
<p><br></p>
<p>Without R Project</p>
<div class="cell">
<div class="sourceCode cell-code" id="cb3"><pre class="sourceCode numberSource r number-lines code-with-copy"><code class="sourceCode r"><span id="cb3-1"><a href="#cb3-1"></a>path <span class="ot">=</span> <span class="st">"C:/Users/DaxKellie/OneDrive/Documents/ALA/Talks/ESA2023/images"</span></span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
<p><br></p>
<p>With R Project</p>
<div class="cell">
<div class="sourceCode cell-code" id="cb4"><pre class="sourceCode numberSource r number-lines code-with-copy"><code class="sourceCode r"><span id="cb4-1"><a href="#cb4-1"></a>path <span class="ot">=</span> <span class="st">"./images"</span></span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
<aside><div>
<div style="font-size: 70%;">
<p><a href="https://rstats.wtf/projects.html">What they forgot to teach you about R by Jenny Bryan</a></p>
</div>
</div></aside></section>
<section id="the-here-package" class="slide level2" data-background-color="#F8F1F5" style="font-size: 80%">
<h2>The {here} package</h2>
<p><br></p>
<p>Works nicely with R projects</p>
<div class="cell">
<div class="sourceCode cell-code" id="cb5"><pre class="sourceCode numberSource r number-lines code-with-copy"><code class="sourceCode r"><span id="cb5-1"><a href="#cb5-1"></a><span class="fu">library</span>(here)</span>
<span id="cb5-2"><a href="#cb5-2"></a>here<span class="sc">::</span><span class="fu">here</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
<div class="cell">
<div class="cell-output cell-output-stdout">
<pre><code>[1] "C:/Users/DaxKellie/OneDrive/Documents/ALA/Talks/ESA2023"</code></pre>
</div>
</div>
<p><br></p>
<p>Makes safe file paths easy</p>
<div class="cell">
<div class="sourceCode cell-code" id="cb7"><pre class="sourceCode numberSource r number-lines code-with-copy"><code class="sourceCode r"><span id="cb7-1"><a href="#cb7-1"></a>here<span class="sc">::</span><span class="fu">here</span>(<span class="st">"images"</span>, <span class="st">"folder"</span>, <span class="st">"subfolder"</span>)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
<div class="cell">
<div class="cell-output cell-output-stdout">
<pre><code>[1] "C:/Users/DaxKellie/OneDrive/Documents/ALA/Talks/ESA2023/images/folder/subfolder"</code></pre>
</div>
</div>
<aside><div>
<div style="font-size: 70%;">
<p><a href="https://here.r-lib.org/">The here package website</a></p>
</div>
</div></aside></section>
<section id="the-renv-package" class="slide level2" data-background-color="#F8F1F5" style="font-size: 80%">
<h2>The {renv} package</h2>
<div class="columns">
<div class="column" style="width:80%;">
<p>Initialise a new project-local R library</p>
<div class="cell">
<div class="sourceCode cell-code" id="cb9"><pre class="sourceCode numberSource r number-lines code-with-copy"><code class="sourceCode r"><span id="cb9-1"><a href="#cb9-1"></a>renv<span class="sc">::</span><span class="fu">init</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
<p>Save the state of the project to a lockfile</p>
<div class="cell">
<div class="sourceCode cell-code" id="cb10"><pre class="sourceCode numberSource r number-lines code-with-copy"><code class="sourceCode r"><span id="cb10-1"><a href="#cb10-1"></a>renv<span class="sc">::</span><span class="fu">snapshot</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
<pre><code>{
"R": {
"Version": "4.2.3",
"Repositories": [
{
"Name": "CRAN",
"URL": "https://cloud.r-project.org"
}
]
},
"Packages": {
"markdown": {
"Package": "markdown",
"Version": "1.0",
"Source": "Repository",
"Repository": "CRAN",
"Hash": "4584a57f565dd7987d59dda3a02cfb41"
},
"mime": {
"Package": "mime",
"Version": "0.7",
"Source": "Repository",
"Repository": "CRAN",
"Hash": "908d95ccbfd1dd274073ef07a7c93934"
}
}
}</code></pre>
</div><div class="column" style="width:20%;">
<p><img data-src="images/renv_logo.svg"></p>
</div>
</div>
<aside><div>
<div style="font-size: 70%;">
<p><a href="https://rstudio.github.io/renv/index.html">The renv package website</a></p>
</div>
</div></aside></section>
<section id="use-github" class="slide level2" data-background-color="#F8F1F5" style="font-size: 80%;">
<h2>Use GitHub</h2>
<p>Backup your project online, share your project with others</p>
<center>
<img data-src="images/github_repo.png" height="500">
</center>
</section>
<section id="use-github-1" class="slide level2" data-background-color="#F8F1F5" style="font-size: 80%">
<h2>Use GitHub</h2>
<p>README at the front to explain high-level context, structure, metadata</p>
<center>
<img data-src="images/github_repo-readme.png" height="500">
</center>
</section>
<section id="use-github-2" class="slide level2" data-background-color="#F8F1F5" style="font-size: 80%">
<h2>Use GitHub</h2>
<p>Version control with GitHub Desktop is easy to learn because it’s visual</p>
<center>
<img data-src="images/github_desktop.png" height="300">
</center>
</section></section>
<section>
<section id="readable-code-readable-notes" class="title-slide slide level1 center" data-background-color="#3E6990" data-transition="slide" style="color: #ffffff; font-size: 120%">
<h1>2. Readable code, readable notes</h1>
</section>
<section id="simple-clear-names" class="slide level2" data-background-color="#F1F5F9" style="font-size: 80%">
<h2>Simple, clear names</h2>
<div class="columns">
<div class="column" style="width:50%;">
<p><br></p>
<p>Meh</p>
<div class="cell">
<div class="sourceCode cell-code" id="cb12"><pre class="sourceCode numberSource r number-lines code-with-copy"><code class="sourceCode r"><span id="cb12-1"><a href="#cb12-1"></a><span class="co"># Objects</span></span>
<span id="cb12-2"><a href="#cb12-2"></a>dat_band_occsFD2 <span class="ot"><-</span> ...</span>
<span id="cb12-3"><a href="#cb12-3"></a>plot2.occMod <span class="ot"><-</span> ...</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
<div class="fragment fade-in" data-fragment-index="1">
<p><br></p>
<div class="cell">
<div class="sourceCode cell-code" id="cb13"><pre class="sourceCode numberSource r number-lines code-with-copy"><code class="sourceCode r"><span id="cb13-1"><a href="#cb13-1"></a><span class="co"># Functions</span></span>
<span id="cb13-2"><a href="#cb13-2"></a>filter <span class="ot"><-</span> <span class="cf">function</span>(x) {...}</span>
<span id="cb13-3"><a href="#cb13-3"></a>cool_func <span class="ot"><-</span> <span class="cf">function</span>(x) {...}</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
</div>
</div><div class="column" style="width:50%;">
<p><br></p>
<p>Yay</p>
<div class="cell">
<div class="sourceCode cell-code" id="cb14"><pre class="sourceCode numberSource r number-lines code-with-copy"><code class="sourceCode r"><span id="cb14-1"><a href="#cb14-1"></a><span class="co"># Objects </span></span>
<span id="cb14-2"><a href="#cb14-2"></a>bandicoots_filtered <span class="ot"><-</span> ...</span>
<span id="cb14-3"><a href="#cb14-3"></a>barplot_birds_high_temp <span class="ot"><-</span> ...</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
<div class="fragment fade-in" data-fragment-index="1">
<p><br></p>
<div class="cell">
<div class="sourceCode cell-code" id="cb15"><pre class="sourceCode numberSource r number-lines code-with-copy"><code class="sourceCode r"><span id="cb15-1"><a href="#cb15-1"></a><span class="co"># Functions</span></span>
<span id="cb15-2"><a href="#cb15-2"></a>filter_outliers <span class="ot"><-</span> <span class="cf">function</span>(x) {...}</span>
<span id="cb15-3"><a href="#cb15-3"></a>make_map <span class="ot"><-</span> <span class="cf">function</span>(x) {...}</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
</div>
</div>
</div>
</section>
<section id="simple-clear-notes-with-interpretations" class="slide level2" data-background-color="#F1F5F9" style="font-size: 80%">
<h2>Simple, clear notes (with interpretations)</h2>
<p><br></p>
<p>Meh</p>
<div class="cell">
<div class="sourceCode cell-code" id="cb16"><pre class="sourceCode numberSource r number-lines code-with-copy"><code class="sourceCode r"><span id="cb16-1"><a href="#cb16-1"></a>model <span class="ot"><-</span> <span class="fu">lmer</span>(outcome <span class="sc">~</span> predictor_1 <span class="sc">+</span> predictor_2 <span class="sc">+</span> covariate_1 <span class="sc">+</span> </span>
<span id="cb16-2"><a href="#cb16-2"></a> (<span class="dv">1</span><span class="sc">|</span>covariate_2) <span class="co"># random effect</span></span>
<span id="cb16-3"><a href="#cb16-3"></a> <span class="at">data =</span> data)</span>
<span id="cb16-4"><a href="#cb16-4"></a><span class="fu">summary</span>(model)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
<p><br></p>
<p>Yay</p>
<div class="cell">
<div class="sourceCode cell-code" id="cb17"><pre class="sourceCode numberSource r number-lines code-with-copy"><code class="sourceCode r"><span id="cb17-1"><a href="#cb17-1"></a><span class="co"># Test effects of temperature and rainfall on species richness</span></span>
<span id="cb17-2"><a href="#cb17-2"></a>model <span class="ot"><-</span> <span class="fu">lmer</span>(outcome <span class="sc">~</span> predictor_1 <span class="sc">+</span> predictor_2 <span class="sc">+</span> covariate_1 <span class="sc">+</span> </span>
<span id="cb17-3"><a href="#cb17-3"></a> (<span class="dv">1</span><span class="sc">|</span>covariate_2) <span class="co"># random effect</span></span>
<span id="cb17-4"><a href="#cb17-4"></a> <span class="at">data =</span> data)</span>
<span id="cb17-5"><a href="#cb17-5"></a><span class="fu">summary</span>(model)</span>
<span id="cb17-6"><a href="#cb17-6"></a></span>
<span id="cb17-7"><a href="#cb17-7"></a><span class="co"># Results show significant effect of predictor_1. This suggests [interpretation]...</span></span>
<span id="cb17-8"><a href="#cb17-8"></a><span class="co"># However, confidence intervals of significant effect are wide</span></span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
</section></section>
<section>
<section id="render-your-code-into-a-document-with-middle-steps-included" class="title-slide slide level1 center" data-background-color="#C15933" data-transition="fade" style="color: #ffffff; font-size: 120%">
<h1>3. Render your code into a document <br>(with middle steps included)</h1>
</section>
<section id="document-results-for-easy-referencing-later" class="slide level2" data-background-color="#FBF2EF" style="font-size: 80%">
<h2>Document results for easy referencing later</h2>
<p>Quickly reference and share your work (because you don’t need to rerun your code) <video data-src="images/alpha-hulls.mov" controls=""><a href="images/alpha-hulls.mov">Video</a></video></p>
</section>
<section id="document-results-for-easy-referencing-later-1" class="slide level2" data-background-color="#FBF2EF" style="font-size: 80%">
<h2>Document results for easy referencing later</h2>
Quarto is like a refined, updated R Markdown - it’s easy and makes documents look <em>nice</em>
<center>
<img data-src="images/quarto-example.png" height="500">
</center>
<aside><div>
<div style="font-size: 70%;">
<p><a href="https://quarto.org/">Quarto website</a></p>
</div>
</div></aside></section>
<section id="document-results-for-easy-referencing-later-2" class="slide level2" data-background-color="#FBF2EF" style="font-size: 80%">
<h2>Document results for easy referencing later</h2>
<p>Saving them in one place creates an accessible library of usable code. <br>This can be public or private</p>
<center>
<img data-src="images/posts-labs-library.png" height="450">
</center>
</section></section>
<section>
<section id="summary" class="title-slide slide level1 center" data-background-color="#ffffff">
<h1>Summary</h1>
</section>
<section id="small-steps-to-improve-reproducibility-with-big-impacts-1" class="slide level2">
<h2>Small steps to improve reproducibility with big impacts</h2>
<ul>
<li>Aim to make your work environment shareable</li>
</ul>
<pre><code>- Create projects with safe links (R Projects + {here})
- Save package versions ({renv})
- Use an online repository (GitHub)</code></pre>
<ul>
<li>Readable code, readable notes</li>
</ul>
<pre><code>- Simple, clear object & function names
- Clear notes with interpretations of results</code></pre>
<ul>
<li>Render your code into a document</li>
</ul>
<pre><code>- Quickly reference your work (because you don't need to rerun your code)
- Save rendered files somewhere findable/shareable to reference later
- Quarto makes this easier than ever</code></pre>
</section>
<section id="thank-you" class="slide level2" data-background-color="#fde5ce">
<h2>Thank you</h2>
<div class="columns">
<div class="column" style="width:60%;">
<div style="font-size: 70%;">
<p><br> <b>Dax Kellie</b><br>Data Analyst & Science Lead<br>Science & Decision Support | ALA <br><i class="fa-solid fa-envelope fa-lg" aria-label="envelope"></i>: <a href="mailto:dax.kellie@csiro.au">dax.kellie@csiro.au</a><br> <i class="fa-brands fa-twitter fa-lg" aria-label="twitter"></i>: <a href="https://twitter.com/daxkellie">@daxkellie</a><br> <i class="fa-brands fa-github fa-lg" aria-label="github"></i>: <a href="https://github.com/daxkellie">@daxkellie</a> <br> <br> <b>Science & Decision Support team</b><br> Martin Westgate, Fonti Kar, Olivia Torresan<br> Shandiya Balasubramaniam, Amanda Buyan<br>Juliet Seers, Callum Waite<br> <br> <em>These slides were made using Quarto & RStudio</em></p>
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<p>Slides: <br></p>
<p><img data-src="images/qr-code.png" height="170"></p>
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// Stop auto-sliding after user input
autoSlideStoppable: true,
// Use this method for navigation when auto-sliding
autoSlideMethod: null,
// Specify the average time in seconds that you think you will spend
// presenting each slide. This is used to show a pacing timer in the
// speaker view
defaultTiming: null,
// Enable slide navigation via mouse wheel
mouseWheel: false,