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arranhamlet committed Nov 25, 2024
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6 changes: 3 additions & 3 deletions html_outputs/index.html
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Expand Up @@ -725,7 +725,7 @@ <h1 class="title">The Epidemiologist R Handbook</h1>
<div>
<div class="quarto-title-meta-heading">Last updated</div>
<div class="quarto-title-meta-contents">
<p class="date">Oct 30, 2024</p>
<p class="date">Nov 25, 2024</p>
</div>
</div>

Expand Down Expand Up @@ -825,7 +825,7 @@ <h2 class="unnumbered anchored" data-anchor-id="acknowledgements">Acknowledgemen
<section id="contributors" class="level3 unnumbered">
<h3 class="unnumbered anchored" data-anchor-id="contributors">Contributors</h3>
<p><strong>Editor:</strong> <a href="https://www.linkedin.com/in/neale-batra/">Neale Batra</a></p>
<p><strong>Authors</strong>: <a href="https://www.linkedin.com/in/neale-batra/">Neale Batra</a>, <a href="https://github.com/aspina7">Alex Spina</a>, <a href="https://www.linkedin.com/in/paula-bianca-blomquist-53188186/">Paula Blomquist</a>, <a href="https://github.com/finlaycampbell">Finlay Campbell</a>, <a href="https://github.com/henryls1">Henry Laurenson-Schafer</a>, <a href="www.Twitter.com/isaacatflorence">Isaac Florence</a>, <a href="https://www.linkedin.com/in/nataliefischer211/">Natalie Fischer</a>, <a href="https://twitter.com/aminata_fadl">Aminata Ndiaye</a>, <a href="https://www.linkedin.com/in/liza-coyer-86022040/">Liza Coyer</a>, <a href="https://twitter.com/jonny_polonsky">Jonathan Polonsky</a>, <a href="https://ch.linkedin.com/in/yurie-izawa-a1590319">Yurie Izawa</a>, <a href="https://twitter.com/cbailey_58?lang=en">Chris Bailey</a>, <a href="https://www.linkedin.com/in/daniel-molling-4005716a/">Daniel Molling</a>, <a href="https://twitter.com/ishaberry2">Isha Berry</a>, <a href="https://twitter.com/buajitti">Emma Buajitti</a>, <a href="https://mathildemousset.wordpress.com/research/">Mathilde Mousset</a>, <a href="https://www.linkedin.com/in/saramhollis/">Sara Hollis</a>, Wen Lin</p>
<p><strong>Authors</strong>: <a href="https://www.linkedin.com/in/neale-batra/">Neale Batra</a>, <a href="https://github.com/aspina7">Alex Spina</a>, <a href="https://www.linkedin.com/in/paula-bianca-blomquist-53188186/">Paula Blomquist</a>, <a href="https://github.com/finlaycampbell">Finlay Campbell</a>, <a href="https://github.com/henryls1">Henry Laurenson-Schafer</a>, <a href="www.Twitter.com/isaacatflorence">Isaac Florence</a>, <a href="https://www.linkedin.com/in/nataliefischer211/">Natalie Fischer</a>, <a href="https://twitter.com/aminata_fadl">Aminata Ndiaye</a>, <a href="https://www.linkedin.com/in/liza-coyer-86022040/">Liza Coyer</a>, <a href="https://twitter.com/jonny_polonsky">Jonathan Polonsky</a>, <a href="https://ch.linkedin.com/in/yurie-izawa-a1590319">Yurie Izawa</a>, <a href="https://twitter.com/cbailey_58?lang=en">Chris Bailey</a>, <a href="https://www.linkedin.com/in/daniel-molling-4005716a/">Daniel Molling</a>, <a href="https://twitter.com/ishaberry2">Isha Berry</a>, <a href="https://twitter.com/buajitti">Emma Buajitti</a>, <a href="https://mathildemousset.wordpress.com/research/">Mathilde Mousset</a>, <a href="https://www.linkedin.com/in/saramhollis/">Sara Hollis</a>, Wen Lin, <a href="https://www.linkedin.com/in/arran-hamlet-39981478/">Arran Hamlet</a></p>
<p><strong>Reviewers and supporters</strong>: Pat Keating, <a href="https://twitter.com/Ammer_B">Amrish Baidjoe</a>, Annick Lenglet, Margot Charette, Danielly Xavier, Marie-Amélie Degail Chabrat, Esther Kukielka, Michelle Sloan, Aybüke Koyuncu, Rachel Burke, Kate Kelsey, <a href="https://www.linkedin.com/in/berhe-etsay-5752b1154/">Berhe Etsay</a>, John Rossow, Mackenzie Zendt, James Wright, Laura Haskins, <a href="ffinger.github.io">Flavio Finger</a>, Tim Taylor, <a href="https://www.linkedin.com/in/jaehyoungtlee/">Jae Hyoung Tim Lee</a>, <a href="https://www.linkedin.com/in/brianna-bradley-bb8658155">Brianna Bradley</a>, <a href="https://www.linkedin.com/in/wenanoria">Wayne Enanoria</a>, Manual Albela Miranda, <a href="https://www.linkedin.com/in/molly-mantus-174550150/">Molly Mantus</a>, Pattama Ulrich, Joseph Timothy, Adam Vaughan, Olivia Varsaneux, Lionel Monteiro, Joao Muianga</p>
<p><strong>Illustrations</strong>: Calder Fong</p>
<!-- **Editor-in-Chief:** Neale Batra -->
Expand Down Expand Up @@ -1463,7 +1463,7 @@ <h3 class="unnumbered anchored" data-anchor-id="contribution">Contribution</h3>
</div>
</div>
</footer>
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<script>var lightboxQuarto = GLightbox({"selector":".lightbox","loop":false,"openEffect":"zoom","closeEffect":"zoom","descPosition":"bottom"});
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2 changes: 1 addition & 1 deletion html_outputs/new_pages/data_table.html
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Expand Up @@ -799,7 +799,7 @@ <h3 class="unnumbered anchored" data-anchor-id="import-data">Import data</h3>
<p>This page will explore some of the core functions of <strong>data.table</strong> using the case linelist referenced throughout the handbook.</p>
<p>We import the dataset of cases from a simulated Ebola epidemic. If you want to download the data to follow step-by-step, see instructions in the <a href="../new_pages/data_used.html">Download book and data</a> page. The dataset is imported using the <code>import()</code> function from the <strong>rio</strong> package. See the page on <a href="../new_pages/importing.html">Import and export</a> for various ways to import data. From here we use <code>data.table()</code> to convert the data frame to a data table.</p>
<div class="cell">
<div class="sourceCode cell-code" id="cb2"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb2-1"><a href="#cb2-1" aria-hidden="true" tabindex="-1"></a>linelist <span class="ot">&lt;-</span> rio<span class="sc">::</span><span class="fu">import</span>(<span class="fu">here</span>(<span class="st">"data"</span>, <span class="st">"linelist_cleaned.xlsx"</span>)) <span class="sc">%&gt;%</span> </span>
<div class="sourceCode cell-code" id="cb2"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb2-1"><a href="#cb2-1" aria-hidden="true" tabindex="-1"></a>linelist <span class="ot">&lt;-</span> <span class="fu">import</span>(<span class="fu">here</span>(<span class="st">"data"</span>, <span class="st">"case_linelists"</span>, <span class="st">"linelist_cleaned.rds"</span>)) <span class="sc">%&gt;%</span> </span>
<span id="cb2-2"><a href="#cb2-2" aria-hidden="true" tabindex="-1"></a> <span class="fu">data.table</span>()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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<p>The <code>fread()</code> function is used to directly import regular delimited files, such as .csv files, directly to a data table format. This function, and its counterpart, <code>fwrite()</code>, used for writing data.tables as regular delimited files are very fast and computationally efficient options for large databases.</p>
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