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<!DOCTYPE html>
<html lang="en"><head>
<script src="osupdates11012023_files/libs/clipboard/clipboard.min.js"></script>
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<meta name="generator" content="quarto-1.2.475">
<meta name="author" content="Dr. Marcus Beck, [email protected]">
<title>OPEN SCIENCE UPDATES</title>
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<section id="title-slide" class="quarto-title-block center">
<h1 class="title">OPEN SCIENCE UPDATES</h1>
<div class="quarto-title-authors">
<div class="quarto-title-author">
<div class="quarto-title-author-name">
Dr. Marcus Beck, <a href="mailto:[email protected]" class="email">[email protected]</a>
</div>
<p class="quarto-title-affiliation">
Tampa Bay Estuary Program
</p>
</div>
</div>
<p class="date">11/1/23</p>
</section>
<section id="roles-and-responsibilities" class="slide level2">
<h2>ROLES AND RESPONSIBILITIES</h2>
<ol type="1">
<li><p>Support development of open science products at TBEP</p></li>
<li><p>Rank priority research areas for developing open science products</p></li>
<li><p>Facilitate training activities</p></li>
</ol>
<p><a href="https://docs.google.com/document/d/1w6dVTwfYYDRVzGPXy0jyHxV4mwOutEY_ISMP1oAdZ_c/edit">Guiding Document</a></p>
</section>
<section id="rstudiogithub-copilot" class="slide level2">
<h2>RStudio/GitHub copilot</h2>
<ul>
<li><a href="https://colorado.posit.co/rsc/rstudio-copilot/" class="uri">https://colorado.posit.co/rsc/rstudio-copilot/</a></li>
<li>Automated code prompts</li>
<li>Requires GitHub Pro (personal) - $10/mo</li>
<li>Requires RStudio 2023.09.1</li>
</ul>
</section>
<section id="rstudiogithub-copilot-1" class="slide level2">
<h2>RStudio/GitHub copilot</h2>
<img data-src="media/copilot_vid.gif" class="r-stretch"></section>
<section id="chatgpt-and-chattr-rstudio" class="slide level2">
<h2>ChatGPT and chattr RStudio</h2>
<ul>
<li>AI can be used directly in RStudio</li>
<li>RStudio can use ChatGPT as an add in with the <a href="https://github.com/jcrodriguez1989/chatgpt">chatgpt</a> package</li>
<li>The <a href="https://mlverse.github.io/chattr/">chattr</a> package is similar, but provides code-specific answers, links to other LLMs</li>
<li>Requires a credit card…</li>
</ul>
</section>
<section id="chatgpt" class="slide level2">
<h2>ChatGPT</h2>
<img data-src="media/chatgptaddin2.gif" class="r-stretch"></section>
<section id="chattr" class="slide level2">
<h2>chattr</h2>
<img data-src="media/chattr2.gif" class="r-stretch"></section>
<section id="trainings-and-good-reads" class="slide level2">
<h2>TRAININGS AND GOOD READS</h2>
<ul>
<li><a href="https://github.com/posit-conf-2023" class="uri">https://github.com/posit-conf-2023</a></li>
<li>CERF 2023 biennial meeting, Nov. 12-16, Portland, OR: <a href="https://tbep-tech.github.io/shiny-workshop/">Dashboards: Using R to Create Actionable Science</a></li>
<li><a href="https://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.3002362">Open Science 2.0: Towards a truly collaborative research ecosystem</a></li>
</ul>
</section>
<section id="schedule" class="slide level2">
<h2>2024 SCHEDULE</h2>
<ul>
<li>May 29</li>
<li>November 27</li>
<li>Hackathon date TBD</li>
</ul>
<img src="figure/TBEP_logo.png" class="slide-logo r-stretch"><div class="footer footer-default">
<p>Tampa Bay Estuary Program, Open Science Subcommittee</p>
</div>
</section>
</div>
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// button target
const button = e.trigger;
// don't keep focus
button.blur();
// flash "checked"
button.classList.add('code-copy-button-checked');
var currentTitle = button.getAttribute("title");
button.setAttribute("title", "Copied!");
let tooltip;
if (window.bootstrap) {
button.setAttribute("data-bs-toggle", "tooltip");
button.setAttribute("data-bs-placement", "left");
button.setAttribute("data-bs-title", "Copied!");
tooltip = new bootstrap.Tooltip(button,
{ trigger: "manual",
customClass: "code-copy-button-tooltip",
offset: [0, -8]});
tooltip.show();
}
setTimeout(function() {
if (tooltip) {
tooltip.hide();
button.removeAttribute("data-bs-title");
button.removeAttribute("data-bs-toggle");
button.removeAttribute("data-bs-placement");
}
button.setAttribute("title", currentTitle);
button.classList.remove('code-copy-button-checked');
}, 1000);
// clear code selection
e.clearSelection();
});
function tippyHover(el, contentFn) {
const config = {
allowHTML: true,
content: contentFn,
maxWidth: 500,
delay: 100,
arrow: false,
appendTo: function(el) {
return el.closest('section.slide') || el.parentElement;
},
interactive: true,
interactiveBorder: 10,
theme: 'quarto-reveal',
placement: 'bottom-start'
};
config['offset'] = [0,0];
config['maxWidth'] = 700;
window.tippy(el, config);
}
const noterefs = window.document.querySelectorAll('a[role="doc-noteref"]');
for (var i=0; i<noterefs.length; i++) {
const ref = noterefs[i];
tippyHover(ref, function() {
// use id or data attribute instead here
let href = ref.getAttribute('data-footnote-href') || ref.getAttribute('href');
try { href = new URL(href).hash; } catch {}
const id = href.replace(/^#\/?/, "");
const note = window.document.getElementById(id);
return note.innerHTML;
});
}
const findCites = (el) => {
const parentEl = el.parentElement;
if (parentEl) {
const cites = parentEl.dataset.cites;
if (cites) {
return {
el,
cites: cites.split(' ')
};
} else {
return findCites(el.parentElement)
}
} else {
return undefined;
}
};
var bibliorefs = window.document.querySelectorAll('a[role="doc-biblioref"]');
for (var i=0; i<bibliorefs.length; i++) {
const ref = bibliorefs[i];
const citeInfo = findCites(ref);
if (citeInfo) {
tippyHover(citeInfo.el, function() {
var popup = window.document.createElement('div');
citeInfo.cites.forEach(function(cite) {
var citeDiv = window.document.createElement('div');
citeDiv.classList.add('hanging-indent');
citeDiv.classList.add('csl-entry');
var biblioDiv = window.document.getElementById('ref-' + cite);
if (biblioDiv) {
citeDiv.innerHTML = biblioDiv.innerHTML;
}
popup.appendChild(citeDiv);
});
return popup.innerHTML;
});
}
}
var localhostRegex = new RegExp(/^(?:http|https):\/\/localhost\:?[0-9]*\//);
var filterRegex = new RegExp('/' + window.location.host + '/');
var isInternal = (href) => {
return filterRegex.test(href) || localhostRegex.test(href);
}
// Inspect non-navigation links and adorn them if external
var links = window.document.querySelectorAll('a:not(.nav-link):not(.navbar-brand):not(.toc-action):not(.sidebar-link):not(.sidebar-item-toggle):not(.pagination-link):not(.no-external):not([aria-hidden]):not(.dropdown-item)');
for (var i=0; i<links.length; i++) {
const link = links[i];
if (!isInternal(link.href)) {
// target, if specified
link.setAttribute("target", "_blank");
// default icon
link.classList.add("external");
}
}
});
</script>
</body></html>