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appliedepi · Jul 25, 2024 · 0be7113 · 0be7113
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diff --git a/html_outputs/index.html b/html_outputs/index.html
diff --git a/html_outputs/new_pages/basics.html b/html_outputs/new_pages/basics.html
diff --git a/html_outputs/new_pages/characters_strings.html b/html_outputs/new_pages/characters_strings.html
diff --git a/html_outputs/new_pages/cleaning.html b/html_outputs/new_pages/cleaning.html
diff --git a/html_outputs/new_pages/data_table.html b/html_outputs/new_pages/data_table.html
@@ -2,7 +2,7 @@
 <html xmlns="http://www.w3.org/1999/xhtml" lang="en" xml:lang="en"><head>
 
 <meta charset="utf-8">
-<meta name="generator" content="quarto-1.4.550">
+<meta name="generator" content="quarto-1.4.555">
 
 <meta name="viewport" content="width=device-width, initial-scale=1.0, user-scalable=yes">
 
@@ -133,64 +133,123 @@
 </script> 
 
 <script async="" src="https://www.googletagmanager.com/gtag/js?id=G-QXDW878QLX"></script>
+
 <script>
+
   window.dataLayer = window.dataLayer || [];
+
   function gtag(){dataLayer.push(arguments);}
+
   gtag('js', new Date());
 
+
+
   gtag('config', 'G-QXDW878QLX');
+
 </script>
 
+
+
 </head><body class="nav-sidebar floating"><div class="alert alert-info alert-dismissible">
+
   <!-- <a href="#" class="close" data-dismiss="alert" aria-label="close">&times;</a>
+
   <strong>Need help learning R?</strong> Enroll in Applied Epi's <a href="https://www.appliedepi.org/live/"
+
     class="alert-link">intro R course</a>, try our <a href="https://www.appliedepi.org/tutorial/"
+
     class="alert-link">free R tutorials</a>, post in our <a href="https://community.appliedepi.org/"
+
     class="alert-link">Community Q&A forum</a>, or ask about our <a href="mailto:[email protected]"
+
     class="alert-link">R Help Desk service</a>. -->
+
 </div>
 
+
+
 <script>
 
+
+
   // Function to extract the last two characters from the URL path
+
   function getLanguageFromURL() {
+
     const path = window.location.pathname.split('/');
+
 
+
     if (path.length > 1) {
+
       return path[1]; // Assume the language code is the second segment
+
     }
 
+
+
     return '';
+
   }
 
+
+
   const language = getLanguageFromURL();
+
   const supportedLanguages = ['fr', 'es', 'vn', 'jp', 'pt', 'tr', 'ru', 'en'];
+
   const defaultLanguage = 'en';
+
   const isSupportedLanguage = supportedLanguages.includes(language);
 
+
+
   // Translations for the content
+
   const translations = {
+
     en: '<strong>Need help learning R?</strong> Enroll in Applied Epi\'s <a href="https://www.appliedepi.org/live/" class="alert-link">intro R course</a>, try our <a href="https://www.appliedepi.org/tutorial/" class="alert-link">free R tutorials</a>, post in our <a href="https://community.appliedepi.org/" class="alert-link">Community Q&A forum</a>, or ask about our <a href="mailto:[email protected]" class="alert-link">R Help Desk service</a>.',
+
     fr: '<strong>Besoin d\'aide pour apprendre R ?</strong> Inscrivez-vous au <a href="https://www.appliedepi.org/live/" class="alert-link">cours d\'introduction à R</a> d\'Applied Epi, essayez nos <a href="https://www.appliedepi.org/tutorial/" class="alert-link">tutoriels R gratuits</a>, postez dans notre forum de <a href="https://community.appliedepi.org/" class="alert-link">questions-réponses communautaires</a>, ou demandez-nous des informations sur <a href="mailto:[email protected]" class="alert-link"> notre service d\'assistance R</a>.',
+
     es: '<strong>¿Necesitas ayuda para aprender R?</strong> Inscríbete en el <a href="https://www.appliedepi.org/live/" class="alert-link">Curso de introducción a R</a> de Applied Epi, prueba nuestros <a href="https://www.appliedepi.org/tutorial/" class="alert-link">Tutoriales gratuitos de R</a>, escribe en nuestro <a href="https://community.appliedepi.org/" class="alert-link">Foro de preguntas y respuestas,</a> o pregunta por nuestra <a href="mailto:[email protected]" class="alert-link">Asistencia técnica para R</a>.',
+
     vn: '<strong>Bạn cần giúp đỡ trong việc học R?</strong> Hãy đăng ký khóa học R cơ bản của Applied Epi tại <a href="https://www.appliedepi.org/live/" class="alert-link">đây</a>, hoặc thử các <a href="https://www.appliedepi.org/tutorial/" class="alert-link">hướng dẫn R miễn phí</a>, đăng bài trong <a href="https://community.appliedepi.org/" class="alert-link">diễn đàn cộng đồng</a>, hoặc gửi câu hỏi tới <a href="mailto:[email protected]" class="alert-link">dịch vụ Trợ giúp R</a> của chúng tôi.',
+
     jp: '<strong>Rの学習について助けが必要ですか？</strong>Applied Epiの<a href="https://www.appliedepi.org/live/" class="alert-link">R入門コース</a>に登録するか、<a href="https://www.appliedepi.org/tutorial/" class="alert-link">無料Rチュートリアル</a>を試すか、<a href="https://community.appliedepi.org/" class="alert-link">コミュニティQ＆Aフォーラム</a>に投稿するか、<a href="mailto:[email protected]" class="alert-link">Rヘルプデスクサービス</a>についてお問い合わせください。',
+
     pt: '<strong>Você precisa de ajuda para aprender R??</strong> Inscreva-se no curso de <a href="https://www.appliedepi.org/live/" class="alert-link">introdução ao R da Applied Epi</a>, experimente nossos <a href="https://www.appliedepi.org/tutorial/" class="alert-link">tutoriais gratuitos sobre o R</a>, publique em nosso <a href="https://community.appliedepi.org/" class="alert-link">fórum de perguntas e respostas</a>, ou solicite nosso <a href="mailto:[email protected]" class="alert-link">suporte ao R</a>.',
+
     tr: '<strong>R öğrenmekte yardıma mı ihtiyacınız var?</strong> Applied Epi\'\nin <a href="https://www.appliedepi.org/live/" class="alert-link">R\'ye giriş kursuna</a> kaydolun, <a href="https://www.appliedepi.org/tutorial/" class="alert-link">ücretsiz R derslerimizi</a> deneyin, <a href="https://community.appliedepi.org/" class="alert-link">Topluluk Q&A forumunda</a> soru paylaşın, ya da <a href="mailto:[email protected]" class="alert-link">R Yardım Masası hizmetimiz</a> hakkında sorun.',
+
     ru: '<strong>Нужна помощь в изучении R?</strong> Запишитесь на <a href="https://www.appliedepi.org/live/" class="alert-link">вводный курс по R</a> от Applied Epi, попробуйте наши <a href="https://www.appliedepi.org/tutorial/" class="alert-link">бесплатные учебные материалы по R</a>, задайте вопрос в нашем <a href="https://community.appliedepi.org/" class="alert-link">форуме вопросов и ответов сообщества</a>, или спросите о нашей услуге <a href="mailto:[email protected]" class="alert-link">Службы поддержки по R</a>.'
+
   };
 
+
+
   // Default to English if the detected language is not supported
+
   const contentToDisplay = translations[isSupportedLanguage ? language : defaultLanguage];
 
 
+
+
+
   // Select the element where the content should be displayed
+
   const alertElement = document.querySelector('.alert');
+
   if (alertElement) {
+
     alertElement.innerHTML = contentToDisplay;
+
     alertElement.style.display = 'block'; // Make sure to display the element
+
   }
 
+
+
 </script>
 
 
@@ -1186,6 +1245,24 @@ <h2 data-number="50.7" class="anchored" data-anchor-id="resources"><span class="
     // clear code selection
     e.clearSelection();
   });
+    var localhostRegex = new RegExp(/^(?:http|https):\/\/localhost\:?[0-9]*\//);
+    var mailtoRegex = new RegExp(/^mailto:/);
+      var filterRegex = new RegExp('/' + window.location.host + '/');
+    var isInternal = (href) => {
+        return filterRegex.test(href) || localhostRegex.test(href) || mailtoRegex.test(href);
+    }
+    // Inspect non-navigation links and adorn them if external
+ 	var links = window.document.querySelectorAll('a[href]: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):not(.quarto-navigation-tool)');
+    for (var i=0; i<links.length; i++) {
+      const link = links[i];
+      if (!isInternal(link.href)) {
+        // undo the damage that might have been done by quarto-nav.js in the case of
+        // links that we want to consider external
+        if (link.dataset.originalHref !== undefined) {
+          link.href = link.dataset.originalHref;
+        }
+      }
+    }
   function tippyHover(el, contentFn, onTriggerFn, onUntriggerFn) {
     const config = {
       allowHTML: true,
@@ -1220,7 +1297,11 @@ <h2 data-number="50.7" class="anchored" data-anchor-id="resources"><span class="
       try { href = new URL(href).hash; } catch {}
       const id = href.replace(/^#\/?/, "");
       const note = window.document.getElementById(id);
-      return note.innerHTML;
+      if (note) {
+        return note.innerHTML;
+      } else {
+        return "";
+      }
     });
   }
   const xrefs = window.document.querySelectorAll('a.quarto-xref');

diff --git a/html_outputs/new_pages/data_used.html b/html_outputs/new_pages/data_used.html
@@ -2,7 +2,7 @@
 <html xmlns="http://www.w3.org/1999/xhtml" lang="en" xml:lang="en"><head>
 
 <meta charset="utf-8">
-<meta name="generator" content="quarto-1.4.550">
+<meta name="generator" content="quarto-1.4.555">
 
 <meta name="viewport" content="width=device-width, initial-scale=1.0, user-scalable=yes">
 
@@ -137,64 +137,123 @@
 </script> 
 
 <script async="" src="https://www.googletagmanager.com/gtag/js?id=G-QXDW878QLX"></script>
+
 <script>
+
   window.dataLayer = window.dataLayer || [];
+
   function gtag(){dataLayer.push(arguments);}
+
   gtag('js', new Date());
 
+
+
   gtag('config', 'G-QXDW878QLX');
+
 </script>
 
+
+
 </head><body class="nav-sidebar floating"><div class="alert alert-info alert-dismissible">
+
   <!-- <a href="#" class="close" data-dismiss="alert" aria-label="close">&times;</a>
+
   <strong>Need help learning R?</strong> Enroll in Applied Epi's <a href="https://www.appliedepi.org/live/"
+
     class="alert-link">intro R course</a>, try our <a href="https://www.appliedepi.org/tutorial/"
+
     class="alert-link">free R tutorials</a>, post in our <a href="https://community.appliedepi.org/"
+
     class="alert-link">Community Q&A forum</a>, or ask about our <a href="mailto:[email protected]"
+
     class="alert-link">R Help Desk service</a>. -->
+
 </div>
 
+
+
 <script>
 
+
+
   // Function to extract the last two characters from the URL path
+
   function getLanguageFromURL() {
+
     const path = window.location.pathname.split('/');
+
 
+
     if (path.length > 1) {
+
       return path[1]; // Assume the language code is the second segment
+
     }
 
+
+
     return '';
+
   }
 
+
+
   const language = getLanguageFromURL();
+
   const supportedLanguages = ['fr', 'es', 'vn', 'jp', 'pt', 'tr', 'ru', 'en'];
+
   const defaultLanguage = 'en';
+
   const isSupportedLanguage = supportedLanguages.includes(language);
 
+
+
   // Translations for the content
+
   const translations = {
+
     en: '<strong>Need help learning R?</strong> Enroll in Applied Epi\'s <a href="https://www.appliedepi.org/live/" class="alert-link">intro R course</a>, try our <a href="https://www.appliedepi.org/tutorial/" class="alert-link">free R tutorials</a>, post in our <a href="https://community.appliedepi.org/" class="alert-link">Community Q&A forum</a>, or ask about our <a href="mailto:[email protected]" class="alert-link">R Help Desk service</a>.',
+
     fr: '<strong>Besoin d\'aide pour apprendre R ?</strong> Inscrivez-vous au <a href="https://www.appliedepi.org/live/" class="alert-link">cours d\'introduction à R</a> d\'Applied Epi, essayez nos <a href="https://www.appliedepi.org/tutorial/" class="alert-link">tutoriels R gratuits</a>, postez dans notre forum de <a href="https://community.appliedepi.org/" class="alert-link">questions-réponses communautaires</a>, ou demandez-nous des informations sur <a href="mailto:[email protected]" class="alert-link"> notre service d\'assistance R</a>.',
+
     es: '<strong>¿Necesitas ayuda para aprender R?</strong> Inscríbete en el <a href="https://www.appliedepi.org/live/" class="alert-link">Curso de introducción a R</a> de Applied Epi, prueba nuestros <a href="https://www.appliedepi.org/tutorial/" class="alert-link">Tutoriales gratuitos de R</a>, escribe en nuestro <a href="https://community.appliedepi.org/" class="alert-link">Foro de preguntas y respuestas,</a> o pregunta por nuestra <a href="mailto:[email protected]" class="alert-link">Asistencia técnica para R</a>.',
+
     vn: '<strong>Bạn cần giúp đỡ trong việc học R?</strong> Hãy đăng ký khóa học R cơ bản của Applied Epi tại <a href="https://www.appliedepi.org/live/" class="alert-link">đây</a>, hoặc thử các <a href="https://www.appliedepi.org/tutorial/" class="alert-link">hướng dẫn R miễn phí</a>, đăng bài trong <a href="https://community.appliedepi.org/" class="alert-link">diễn đàn cộng đồng</a>, hoặc gửi câu hỏi tới <a href="mailto:[email protected]" class="alert-link">dịch vụ Trợ giúp R</a> của chúng tôi.',
+
     jp: '<strong>Rの学習について助けが必要ですか？</strong>Applied Epiの<a href="https://www.appliedepi.org/live/" class="alert-link">R入門コース</a>に登録するか、<a href="https://www.appliedepi.org/tutorial/" class="alert-link">無料Rチュートリアル</a>を試すか、<a href="https://community.appliedepi.org/" class="alert-link">コミュニティQ＆Aフォーラム</a>に投稿するか、<a href="mailto:[email protected]" class="alert-link">Rヘルプデスクサービス</a>についてお問い合わせください。',
+
     pt: '<strong>Você precisa de ajuda para aprender R??</strong> Inscreva-se no curso de <a href="https://www.appliedepi.org/live/" class="alert-link">introdução ao R da Applied Epi</a>, experimente nossos <a href="https://www.appliedepi.org/tutorial/" class="alert-link">tutoriais gratuitos sobre o R</a>, publique em nosso <a href="https://community.appliedepi.org/" class="alert-link">fórum de perguntas e respostas</a>, ou solicite nosso <a href="mailto:[email protected]" class="alert-link">suporte ao R</a>.',
+
     tr: '<strong>R öğrenmekte yardıma mı ihtiyacınız var?</strong> Applied Epi\'\nin <a href="https://www.appliedepi.org/live/" class="alert-link">R\'ye giriş kursuna</a> kaydolun, <a href="https://www.appliedepi.org/tutorial/" class="alert-link">ücretsiz R derslerimizi</a> deneyin, <a href="https://community.appliedepi.org/" class="alert-link">Topluluk Q&A forumunda</a> soru paylaşın, ya da <a href="mailto:[email protected]" class="alert-link">R Yardım Masası hizmetimiz</a> hakkında sorun.',
+
     ru: '<strong>Нужна помощь в изучении R?</strong> Запишитесь на <a href="https://www.appliedepi.org/live/" class="alert-link">вводный курс по R</a> от Applied Epi, попробуйте наши <a href="https://www.appliedepi.org/tutorial/" class="alert-link">бесплатные учебные материалы по R</a>, задайте вопрос в нашем <a href="https://community.appliedepi.org/" class="alert-link">форуме вопросов и ответов сообщества</a>, или спросите о нашей услуге <a href="mailto:[email protected]" class="alert-link">Службы поддержки по R</a>.'
+
   };
 
+
+
   // Default to English if the detected language is not supported
+
   const contentToDisplay = translations[isSupportedLanguage ? language : defaultLanguage];
 
 
+
+
+
   // Select the element where the content should be displayed
+
   const alertElement = document.querySelector('.alert');
+
   if (alertElement) {
+
     alertElement.innerHTML = contentToDisplay;
+
     alertElement.style.display = 'block'; // Make sure to display the element
+
   }
 
+
+
 </script>
 
 
@@ -819,7 +878,7 @@ <h4 class="unnumbered anchored" data-anchor-id="contact-tracing">Contact Tracing
 <p><a href="https://github.com/WorldHealthOrganization/godata/blob/master/analytics/r-reporting/data/contacts_clean.rds?raw=true" class="download-button"> Click to download <span>the contact registration data (.rds file)</span> </a></p>
 <p><a href="https://github.com/WorldHealthOrganization/godata/blob/master/analytics/r-reporting/data/followups_clean.rds?raw=true" class="download-button"> Click to download <span>the contact follow-up data (.rds file)</span> </a></p>
 <p><span style="color: black;"><strong><em>NOTE:</em></strong> Structured contact tracing data from other software (e.g.&nbsp;KoBo, DHIS2 Tracker, CommCare) may look different. If you would like to contribute alternative sample data or content for this page, please <a href="#contact_us">contact us</a>.</span></p>
-<p><span style="color: darkgreen;"><strong><em>TIP:</em></strong> If you are deploying Go.Data and want to connect to your instance’s API, see the Import and export page <a href="importing.html#import_api">(API section)</a> and the <a href="https://community-godata.who.int/">Go.Data Community of Practice</a>.</span></p>
+<p><span style="color: darkgreen;"><strong><em>TIP:</em></strong> If you are deploying Go.Data and want to connect to your instance’s API, see the Import and export page <a href="#import_api">(API section)</a> and the <a href="https://community-godata.who.int/">Go.Data Community of Practice</a>.</span></p>
 </section>
 <section id="gis" class="level4 unnumbered">
 <h4 class="unnumbered anchored" data-anchor-id="gis">GIS</h4>
@@ -832,7 +891,7 @@ <h4 class="unnumbered anchored" data-anchor-id="gis">GIS</h4>
 <div class="cell-output-display">
 <div class="quarto-figure quarto-figure-center">
 <figure class="figure">
-<p><a href="../images/download_shp.png" class="lightbox" data-gallery="quarto-lightbox-gallery-1"><img src="../images/download_shp.png" class="quarto-figure quarto-figure-center figure-img" style="height:50.0%" width="918"></a></p>
+<p><a href="../images/download_shp.png" class="lightbox" data-gallery="quarto-lightbox-gallery-1"><img src="../images/download_shp.png" class="quarto-figure quarto-figure-center figure-img" style="height:50.0%"></a></p>
 </figure>
 </div>
 </div>
@@ -1147,6 +1206,24 @@ <h4 class="unnumbered anchored" data-anchor-id="data_shiny">Shiny</h4>
     // clear code selection
     e.clearSelection();
   });
+    var localhostRegex = new RegExp(/^(?:http|https):\/\/localhost\:?[0-9]*\//);
+    var mailtoRegex = new RegExp(/^mailto:/);
+      var filterRegex = new RegExp('/' + window.location.host + '/');
+    var isInternal = (href) => {
+        return filterRegex.test(href) || localhostRegex.test(href) || mailtoRegex.test(href);
+    }
+    // Inspect non-navigation links and adorn them if external
+ 	var links = window.document.querySelectorAll('a[href]: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):not(.quarto-navigation-tool)');
+    for (var i=0; i<links.length; i++) {
+      const link = links[i];
+      if (!isInternal(link.href)) {
+        // undo the damage that might have been done by quarto-nav.js in the case of
+        // links that we want to consider external
+        if (link.dataset.originalHref !== undefined) {
+          link.href = link.dataset.originalHref;
+        }
+      }
+    }
   function tippyHover(el, contentFn, onTriggerFn, onUntriggerFn) {
     const config = {
       allowHTML: true,
@@ -1181,7 +1258,11 @@ <h4 class="unnumbered anchored" data-anchor-id="data_shiny">Shiny</h4>
       try { href = new URL(href).hash; } catch {}
       const id = href.replace(/^#\/?/, "");
       const note = window.document.getElementById(id);
-      return note.innerHTML;
+      if (note) {
+        return note.innerHTML;
+      } else {
+        return "";
+      }
     });
   }
   const xrefs = window.document.querySelectorAll('a.quarto-xref');
@@ -1481,7 +1562,7 @@ <h4 class="unnumbered anchored" data-anchor-id="data_shiny">Shiny</h4>
     </div>
   </div>
 </footer>
-<script>var lightboxQuarto = GLightbox({"openEffect":"zoom","loop":false,"descPosition":"bottom","selector":".lightbox","closeEffect":"zoom"});
+<script>var lightboxQuarto = GLightbox({"selector":".lightbox","closeEffect":"zoom","openEffect":"zoom","loop":false,"descPosition":"bottom"});
 window.onload = () => {
   lightboxQuarto.on('slide_before_load', (data) => {
     const { slideIndex, slideNode, slideConfig, player, trigger } = data;