starting Safety Signal (All drugs)
This commit is contained in:
Frank Knoll
229
docs/SymptomsCausedByDrugs/index.html
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229
docs/SymptomsCausedByDrugs/index.html
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<!DOCTYPE html>
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<html>
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<head>
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<meta content="text/html; charset=utf-8" http-equiv="Content-Type" />
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<!-- Meta, title, CSS, favicons, etc. -->
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<meta charset="utf-8" />
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<meta content="IE=edge" http-equiv="X-UA-Compatible" />
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<meta content="width=device-width, initial-scale=1.0" name="viewport" />
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<title>Safety Signal (All drugs)</title>
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<!-- Google tag (gtag.js) -->
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<script async="" src="https://www.googletagmanager.com/gtag/js?id=G-ERHYDH4P64"></script>
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<script>
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window.dataLayer = window.dataLayer || [];
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function gtag() { dataLayer.push(arguments); }
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gtag('js', new Date());
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gtag('config', 'G-ERHYDH4P64');
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</script>
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<!-- Bootstrap -->
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<link href="../gentelella/vendors/bootstrap/dist/css/bootstrap.min.css" rel="stylesheet" />
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<link href="https://cdn.datatables.net/1.13.1/css/jquery.dataTables.css" rel="stylesheet" type="text/css" />
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<!-- Font Awesome -->
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<link href="../gentelella/vendors/font-awesome/css/font-awesome.min.css" rel="stylesheet" />
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<!-- Custom Theme Style -->
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<link href="../gentelella/build/css/custom.css" rel="stylesheet" />
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<link href="../forkMeOnGitHub.css" rel="stylesheet" type="text/css" />
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<script src="../Utils.js"></script>
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<script src="../UIUtils.js"></script>
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<script src="../NumberWithBarElementFactory.js"></script>
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<script src="./js/PrrByKey2CsvConverter.js"></script>
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<script src="./js/PageInitializer.js"></script>
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<script src="./js/PrrByVaccineProvider.js"></script>
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<script src="./js/PrrByKeyTable.js"></script>
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<script src="./js/PrrByKeyTableView.js"></script>
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<script src="./js/PrrByVaccineTableView.js"></script>
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<script src="./js/PrrBySymptomTableView.js"></script>
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<script>
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document.addEventListener(
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"DOMContentLoaded",
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event => {
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PageInitializer.initializePage(
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{
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symptom: {
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symptomSelectElement: $('#symptomSelect'),
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prrByVaccineTableElement: $('#prrByVaccineTable'),
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downloadPrrByVaccineTableButton: document.querySelector("#downloadPrrByVaccineTable")
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},
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vaccine: {
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vaccineSelectElement: $('#vaccineSelect'),
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prrBySymptomTableElement: $('#prrBySymptomTable'),
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downloadPrrBySymptomTableButton: document.querySelector("#downloadPrrBySymptomTable")
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}
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}
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);
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});
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</script>
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</head>
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<body class="nav-md">
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<div class="container body">
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<div class="main_container">
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<!-- top navigation -->
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<div class="top_nav">
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</div>
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<!-- top navigation -->
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<!-- page content -->
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<div class="right_col" role="main">
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<div>
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<div class="page-title">
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<div class="title_left">
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<h1>Safety Signal (All drugs)</h1>
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<div class="alert alert-danger alert-dismissible" role="alert">
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<button aria-label="Close" class="close" data-dismiss="alert" type="button">
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<span aria-hidden="true">×</span>
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</button>
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Many traditional vaccines are now being switched to mRNA versions. mRNA vaccines such as COVID-19
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vaccine generate strong safety signals and are associated with clotting, heart damage, cancer
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progression, immune suppression and significant excess mortality.
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</div>
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</div>
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</div>
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<div class="clearfix"></div>
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<div class="row">
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<div class="col-xs-12 col-sm-6">
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<div class="x_panel">
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<div class="x_title">
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<h3>Worst Vaccines</h3>
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<div class="clearfix"></div>
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</div>
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<div class="x_content">
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<div style="margin-bottom: 20px;">
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<label>Select Symptom:</label>
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<select id="symptomSelect" name="symptom">
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<option disabled="" hidden="" selected="" value="">Select Symptom</option>
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<option value="Abdominal pain lower ">Abdominal pain lower </option>
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<option value="Abdominal pain upper ">Abdominal pain upper </option>
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<option value="Accidental exposure to product ">Accidental exposure to product </option>
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<option value="Agitation ">Agitation </option>
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<option value="Anal cancer ">Anal cancer </option>
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<option value="Bowel movement irregularity ">Bowel movement irregularity </option>
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<option value="Carcinoembryonic antigen increased ">Carcinoembryonic antigen increased </option>
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<option value="Chest discomfort ">Chest discomfort </option>
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<option value="Colon cancer ">Colon cancer </option>
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<option value="Completed suicide ">Completed suicide </option>
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<option value="Confusional state ">Confusional state </option>
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<option value="Constipation ">Constipation </option>
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<option value="Diarrhoea ">Diarrhoea </option>
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<option value="Drug abuse ">Drug abuse </option>
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<option value="Dysphagia ">Dysphagia </option>
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<option value="Eye pruritus ">Eye pruritus </option>
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<option value="Gastrointestinal disorder ">Gastrointestinal disorder </option>
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<option value="Gastrointestinal tract mucosal pigmentation ">Gastrointestinal tract mucosal
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pigmentation </option>
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<option value="Haematochezia ">Haematochezia </option>
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<option value="Haemorrhoids ">Haemorrhoids </option>
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<option value="Hallucination, visual ">Hallucination, visual </option>
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<option value="Insomnia ">Insomnia </option>
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<option value="Intentional overdose ">Intentional overdose </option>
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<option value="Interstitial lung disease ">Interstitial lung disease </option>
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<option value="Nausea ">Nausea </option>
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<option value="Product use in unapproved indication ">Product use in unapproved indication
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</option>
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<option value="Rectal cancer ">Rectal cancer </option>
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<option value="Rectosigmoid cancer ">Rectosigmoid cancer </option>
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<option value="Sepsis ">Sepsis </option>
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<option value="Somnolence ">Somnolence </option>
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<option value="Swelling ">Swelling </option>
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<option value="Syncope ">Syncope </option>
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<option value="Thrombocytopenic purpura ">Thrombocytopenic purpura </option>
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<option value="Tonic convulsion ">Tonic convulsion </option>
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<option value="Urinary tract infection ">Urinary tract infection </option>
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<option value="Vomiting ">Vomiting </option>
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<option value="Wrong technique in product usage process ">Wrong technique in product usage process
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</option>
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</select>
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</div>
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<table class="display" id="prrByVaccineTable">
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<thead>
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<tr>
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<th>Vaccine</th>
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<th>Lower Confidence Limit of Proportional Reporting Ratio</th>
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</tr>
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</thead>
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</table>
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<button class="btn downloadButton" id="downloadPrrByVaccineTable">Download</button>
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</div>
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</div>
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</div>
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<div class="col-xs-12 col-sm-6">
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<div class="x_panel">
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<div class="x_title">
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<h3>Strongest Symptoms</h3>
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<div class="clearfix"></div>
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</div>
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<div class="x_content">
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<div style="margin-bottom: 20px;">
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<label>Select Vaccine:</label>
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<select id="vaccineSelect" name="vaccine">
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<option disabled="" hidden="" selected="" value="">Select Vaccine</option>
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<option value='"A BUNCH OF OTHER MEDICATIONS" '>"A BUNCH OF OTHER MEDICATIONS" </option>
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<option value='"BETA BLOCKER" '>"BETA BLOCKER" </option>
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<option value='"BLOOD PRESSURE" MEDICATION '>"BLOOD PRESSURE" MEDICATION </option>
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<option
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value=""CHLORO-2"" PHENYL-3' METHYL-5' ISOXAZOLYL-(1') PENICILLINE,SEL DE BENZATHINE" ">
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"CHLORO-2"" PHENYL-3' METHYL-5' ISOXAZOLYL-(1') PENICILLINE,SEL DE BENZATHINE" </option>
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<option value='"DIPHENHYDRAMINE CLEANER (ANIONIC/NONIONIC)" '>"DIPHENHYDRAMINE CLEANER
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(ANIONIC/NONIONIC)" </option>
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<option value='"DRAIN CLEANER" '>"DRAIN CLEANER" </option>
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<option value='"DRUG, UNKNOWN" '>"DRUG, UNKNOWN" </option>
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<option value=""FRED'S LAXATIVE" ">"FRED'S LAXATIVE" </option>
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<option value='"GENERIC COLD ACID" '>"GENERIC COLD ACID" </option>
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</select>
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</div>
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<table class="display" id="prrBySymptomTable">
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<thead>
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<tr>
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<th>Symptom</th>
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<th>Lower Confidence Limit of Proportional Reporting Ratio >= 2</th>
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</tr>
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</thead>
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</table>
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<button class="btn downloadButton" id="downloadPrrBySymptomTable">Download</button>
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</div>
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</div>
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</div>
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</div>
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<div class="clearfix"></div>
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</div>
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</div>
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</div>
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<!-- page content -->
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<!-- footer content -->
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<footer>
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<p>
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<a href="https://howbad.info/safety_signal_paper-x.pdf" target="_blank">Data Source <i aria-hidden="true"
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class="fa fa-external-link"></i>
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</a>
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</p>
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<span id="forkongithub"><a href="https://github.com/KnollFrank/HowBadIsMyBatch" target="_blank">Fork me on
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GitHub <i aria-hidden="true" class="fa fa-external-link"></i>
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</a></span>
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<div class="clearfix"></div>
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</footer>
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</div>
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<template id="template-number-with-bar">
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<div>
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<div class="number"></div>
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<div class="bar"></div>
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</div>
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</template>
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<!-- jQuery -->
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<script src="../gentelella/vendors/jquery/dist/jquery.min.js"></script>
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<!-- Bootstrap -->
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||||||
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<script src="../gentelella/vendors/bootstrap/dist/js/bootstrap.min.js"></script>
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<link href="https://cdn.jsdelivr.net/npm/select2@4.1.0-rc.0/dist/css/select2.min.css" rel="stylesheet" />
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<script src="https://cdn.jsdelivr.net/npm/select2@4.1.0-rc.0/dist/js/select2.min.js"></script>
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<script src="https://cdn.jsdelivr.net/npm/chart.js@4.2.0/dist/chart.umd.min.js"></script>
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<script charset="utf8" src="https://cdn.datatables.net/1.13.1/js/jquery.dataTables.min.js"
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type="text/javascript"></script>
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<script
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src=" https://cdn.jsdelivr.net/npm/chartjs-plugin-datalabels@2.2.0/dist/chartjs-plugin-datalabels.min.js "></script>
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<!-- FastClick -->
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<script src="../gentelella/vendors/fastclick/lib/fastclick.js"></script>
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<!-- Custom Theme Scripts -->
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<script src="../gentelella/build/js/custom.js"></script>
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</body>
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</html>
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37
docs/SymptomsCausedByDrugs/js/PageInitializer.js
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docs/SymptomsCausedByDrugs/js/PageInitializer.js
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class PageInitializer {
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static initializePage({ symptom, vaccine }) {
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PageInitializer.#configureSymptom(symptom);
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PageInitializer.#configureVaccine(vaccine);
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}
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static #configureSymptom({ symptomSelectElement, prrByVaccineTableElement, downloadPrrByVaccineTableButton }) {
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const prrByVaccineTableView = new PrrByVaccineTableView(prrByVaccineTableElement, downloadPrrByVaccineTableButton);
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PageInitializer.#initializeSelectElement(
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{
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selectElement: symptomSelectElement,
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onValueSelected: symptom => prrByVaccineTableView.displayPrrByVaccineTable4Symptom(symptom),
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minimumInputLength: 4
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});
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}
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static #configureVaccine({ vaccineSelectElement, prrBySymptomTableElement, downloadPrrBySymptomTableButton }) {
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const prrBySymptomTableView = new PrrBySymptomTableView(prrBySymptomTableElement, downloadPrrBySymptomTableButton);
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PageInitializer.#initializeSelectElement(
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{
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selectElement: vaccineSelectElement,
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onValueSelected: vaccine => prrBySymptomTableView.displayPrrBySymptomTable4Vaccine(vaccine),
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minimumInputLength: 0
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});
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}
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static #initializeSelectElement({ selectElement, onValueSelected, minimumInputLength }) {
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selectElement.select2({ minimumInputLength: minimumInputLength });
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selectElement.on(
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'select2:select',
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function (event) {
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const value = event.params.data.id;
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onValueSelected(value);
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});
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}
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}
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41
docs/SymptomsCausedByDrugs/js/PrrByKey2CsvConverter.js
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41
docs/SymptomsCausedByDrugs/js/PrrByKey2CsvConverter.js
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class PrrByKey2CsvConverter {
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||||||
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||||||
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static convertPrrByKey2Csv(
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{
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heading,
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columns: { keyColumn, prrColumn },
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prrByKey
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}
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) {
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||||||
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return heading + '\n\n' +
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PrrByKey2CsvConverter.#convert2Csv(
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{
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||||||
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prrByKey: PrrByKey2CsvConverter.#quoteKeys(prrByKey),
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||||||
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keyColumn: PrrByKey2CsvConverter.#quote(keyColumn),
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||||||
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prrColumn: PrrByKey2CsvConverter.#quote(prrColumn)
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});
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||||||
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}
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||||||
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||||||
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static #quoteKeys(prrByKey) {
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||||||
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return Object.fromEntries(
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Object
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||||||
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.entries(prrByKey)
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||||||
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.map(([key, prr]) => [PrrByKey2CsvConverter.#quote(key), prr]))
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||||||
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}
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||||||
|
|
||||||
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static #quote(str) {
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||||||
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return '"' + str + '"';
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||||||
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}
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||||||
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||||||
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static #convert2Csv({ prrByKey, keyColumn, prrColumn }) {
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const header = `${keyColumn},${prrColumn}`;
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||||||
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return `${header}\n${PrrByKey2CsvConverter.#convertDict2Csv(prrByKey)}`;
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||||||
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}
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||||||
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||||||
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static #convertDict2Csv(dict) {
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return Object
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||||||
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.entries(dict)
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||||||
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.map(([key, value]) => `${key},${value}`)
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||||||
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.join('\n');
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||||||
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}
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||||||
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}
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109
docs/SymptomsCausedByDrugs/js/PrrByKeyTable.js
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109
docs/SymptomsCausedByDrugs/js/PrrByKeyTable.js
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class PrrByKeyTable {
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|
|
||||||
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#tableElement;
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||||||
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#table;
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||||||
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#sumPrrs;
|
||||||
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#prrByKey;
|
||||||
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#keyColumnName;
|
||||||
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#prrColumnName;
|
||||||
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#shallMarkRowIfPrrTooHigh;
|
||||||
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|
||||||
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constructor({ tableElement, keyColumnName, prrColumnName, shallMarkRowIfPrrTooHigh }) {
|
||||||
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this.#tableElement = tableElement;
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||||||
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this.#keyColumnName = keyColumnName;
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||||||
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this.#prrColumnName = prrColumnName;
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||||||
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this.#shallMarkRowIfPrrTooHigh = shallMarkRowIfPrrTooHigh;
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||||||
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}
|
||||||
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|
||||||
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initialize() {
|
||||||
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this.#table = this.#createEmptyTable();
|
||||||
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}
|
||||||
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||||||
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display(prrByKey) {
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||||||
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this.#prrByKey = prrByKey;
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||||||
|
const key_prr_pairs = Object.entries(prrByKey);
|
||||||
|
this.#setTableRows(key_prr_pairs);
|
||||||
|
}
|
||||||
|
|
||||||
|
getDisplayedTableAsCsv(heading) {
|
||||||
|
return PrrByKey2CsvConverter.convertPrrByKey2Csv(
|
||||||
|
{
|
||||||
|
heading: heading,
|
||||||
|
columns: {
|
||||||
|
keyColumn: this.#keyColumnName,
|
||||||
|
prrColumn: this.#prrColumnName
|
||||||
|
},
|
||||||
|
prrByKey: this.#prrByKey
|
||||||
|
});
|
||||||
|
}
|
||||||
|
|
||||||
|
#createEmptyTable() {
|
||||||
|
return this.#tableElement.DataTable(
|
||||||
|
{
|
||||||
|
search:
|
||||||
|
{
|
||||||
|
return: false
|
||||||
|
},
|
||||||
|
processing: true,
|
||||||
|
deferRender: true,
|
||||||
|
order: [[this.#getColumnIndex(this.#prrColumnName), "desc"]],
|
||||||
|
columnDefs:
|
||||||
|
[
|
||||||
|
{
|
||||||
|
searchable: false,
|
||||||
|
targets: [this.#getColumnIndex(this.#prrColumnName)]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
render: (prr, type, row, meta) =>
|
||||||
|
(type === 'sort' || type === 'type') ?
|
||||||
|
parseFloat(prr) :
|
||||||
|
NumberWithBarElementFactory
|
||||||
|
.createNumberWithBarElement(
|
||||||
|
{
|
||||||
|
number: prr,
|
||||||
|
barLenInPercent: prr / this.#sumPrrs * 100
|
||||||
|
})
|
||||||
|
.outerHTML,
|
||||||
|
targets: [this.#getColumnIndex(this.#prrColumnName)]
|
||||||
|
}
|
||||||
|
],
|
||||||
|
createdRow: (row, data) => {
|
||||||
|
if (this.#shallMarkRowIfPrrTooHigh) {
|
||||||
|
this.#markRowIfPrrTooHigh(
|
||||||
|
{
|
||||||
|
prr: data[this.#getColumnIndex(this.#prrColumnName)],
|
||||||
|
row: row
|
||||||
|
});
|
||||||
|
}
|
||||||
|
}
|
||||||
|
});
|
||||||
|
}
|
||||||
|
|
||||||
|
#markRowIfPrrTooHigh({ prr, row }) {
|
||||||
|
if (prr >= 2.0) {
|
||||||
|
$(row).addClass('prrTooHigh');
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
|
#getColumnIndex(columnName) {
|
||||||
|
switch (columnName) {
|
||||||
|
case this.#keyColumnName:
|
||||||
|
return 0;
|
||||||
|
case this.#prrColumnName:
|
||||||
|
return 1;
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
|
#setTableRows(key_prr_pairs) {
|
||||||
|
this.#sumPrrs = this.#getSumPrrs(key_prr_pairs);
|
||||||
|
this.#table
|
||||||
|
.clear()
|
||||||
|
.rows.add(key_prr_pairs)
|
||||||
|
.draw();
|
||||||
|
}
|
||||||
|
|
||||||
|
#getSumPrrs(key_prr_pairs) {
|
||||||
|
const prrs = key_prr_pairs.map(key_prr_pair => key_prr_pair[1])
|
||||||
|
return Utils.sum(prrs);
|
||||||
|
}
|
||||||
|
}
|
||||||
44
docs/SymptomsCausedByDrugs/js/PrrByKeyTableView.js
Normal file
44
docs/SymptomsCausedByDrugs/js/PrrByKeyTableView.js
Normal file
@@ -0,0 +1,44 @@
|
|||||||
|
class PrrByKeyTableView {
|
||||||
|
|
||||||
|
#prrByKeyTable;
|
||||||
|
#downloadPrrByKeyTableButton;
|
||||||
|
#value;
|
||||||
|
#valueName;
|
||||||
|
#prrByKeyProvider;
|
||||||
|
|
||||||
|
constructor(prrByKeyTable, downloadPrrByKeyTableButton, valueName, prrByKeyProvider) {
|
||||||
|
this.#prrByKeyTable = prrByKeyTable;
|
||||||
|
this.#prrByKeyTable.initialize();
|
||||||
|
this.#initializeButton(downloadPrrByKeyTableButton);
|
||||||
|
this.#valueName = valueName;
|
||||||
|
this.#prrByKeyProvider = prrByKeyProvider;
|
||||||
|
}
|
||||||
|
|
||||||
|
displayPrrByKeyTable4Value(value) {
|
||||||
|
UIUtils.disableButton(this.#downloadPrrByKeyTableButton);
|
||||||
|
this.#prrByKeyProvider(value)
|
||||||
|
.then(prrByKey => {
|
||||||
|
this.#value = value;
|
||||||
|
this.#prrByKeyTable.display(prrByKey);
|
||||||
|
UIUtils.enableButton(this.#downloadPrrByKeyTableButton);
|
||||||
|
});
|
||||||
|
}
|
||||||
|
|
||||||
|
#initializeButton(downloadPrrByKeyTableButton) {
|
||||||
|
this.#downloadPrrByKeyTableButton = downloadPrrByKeyTableButton;
|
||||||
|
UIUtils.disableButton(downloadPrrByKeyTableButton);
|
||||||
|
downloadPrrByKeyTableButton.addEventListener(
|
||||||
|
'click',
|
||||||
|
() => this.#downloadPrrByKey())
|
||||||
|
}
|
||||||
|
|
||||||
|
#downloadPrrByKey() {
|
||||||
|
UIUtils.downloadUrlAsFilename(
|
||||||
|
window.URL.createObjectURL(
|
||||||
|
new Blob(
|
||||||
|
[this.#prrByKeyTable.getDisplayedTableAsCsv(`# ${this.#valueName}: ${this.#value}`)],
|
||||||
|
{ type: 'text/csv' })),
|
||||||
|
this.#value
|
||||||
|
);
|
||||||
|
}
|
||||||
|
}
|
||||||
25
docs/SymptomsCausedByDrugs/js/PrrBySymptomTableView.js
Normal file
25
docs/SymptomsCausedByDrugs/js/PrrBySymptomTableView.js
Normal file
@@ -0,0 +1,25 @@
|
|||||||
|
class PrrBySymptomTableView {
|
||||||
|
|
||||||
|
#delegate;
|
||||||
|
|
||||||
|
constructor(prrBySymptomTableElement, downloadPrrBySymptomTableButton) {
|
||||||
|
this.#delegate = new PrrByKeyTableView(
|
||||||
|
this.#createPrrBySymptomTable(prrBySymptomTableElement),
|
||||||
|
downloadPrrBySymptomTableButton,
|
||||||
|
'Vaccine',
|
||||||
|
PrrByVaccineProvider.getPrrBySymptom);
|
||||||
|
}
|
||||||
|
|
||||||
|
displayPrrBySymptomTable4Vaccine(vaccine) {
|
||||||
|
this.#delegate.displayPrrByKeyTable4Value(vaccine);
|
||||||
|
}
|
||||||
|
|
||||||
|
#createPrrBySymptomTable(tableElement) {
|
||||||
|
return new PrrByKeyTable({
|
||||||
|
tableElement: tableElement,
|
||||||
|
keyColumnName: 'Symptom',
|
||||||
|
prrColumnName: 'Lower Confidence Limit of Proportional Reporting Ratio >= 2',
|
||||||
|
shallMarkRowIfPrrTooHigh: false
|
||||||
|
});
|
||||||
|
}
|
||||||
|
}
|
||||||
10
docs/SymptomsCausedByDrugs/js/PrrByVaccineProvider.js
Normal file
10
docs/SymptomsCausedByDrugs/js/PrrByVaccineProvider.js
Normal file
@@ -0,0 +1,10 @@
|
|||||||
|
class PrrByVaccineProvider {
|
||||||
|
|
||||||
|
static getPrrByVaccine(symptom) {
|
||||||
|
return fetch(`./data/ProportionalReportingRatios/symptoms/${symptom}.json`).then(response => response.json());
|
||||||
|
}
|
||||||
|
|
||||||
|
static getPrrBySymptom(vaccine) {
|
||||||
|
return fetch(`./data/ProportionalReportingRatios/vaccines/${vaccine}.json`).then(response => response.json());
|
||||||
|
}
|
||||||
|
}
|
||||||
25
docs/SymptomsCausedByDrugs/js/PrrByVaccineTableView.js
Normal file
25
docs/SymptomsCausedByDrugs/js/PrrByVaccineTableView.js
Normal file
@@ -0,0 +1,25 @@
|
|||||||
|
class PrrByVaccineTableView {
|
||||||
|
|
||||||
|
#delegate;
|
||||||
|
|
||||||
|
constructor(prrByVaccineTableElement, downloadPrrByVaccineTableButton) {
|
||||||
|
this.#delegate = new PrrByKeyTableView(
|
||||||
|
this.#createPrrByVaccineTable(prrByVaccineTableElement),
|
||||||
|
downloadPrrByVaccineTableButton,
|
||||||
|
'Symptom',
|
||||||
|
PrrByVaccineProvider.getPrrByVaccine);
|
||||||
|
}
|
||||||
|
|
||||||
|
displayPrrByVaccineTable4Symptom(symptom) {
|
||||||
|
this.#delegate.displayPrrByKeyTable4Value(symptom);
|
||||||
|
}
|
||||||
|
|
||||||
|
#createPrrByVaccineTable(tableElement) {
|
||||||
|
return new PrrByKeyTable({
|
||||||
|
tableElement: tableElement,
|
||||||
|
keyColumnName: 'Vaccine',
|
||||||
|
prrColumnName: 'Lower Confidence Limit of Proportional Reporting Ratio',
|
||||||
|
shallMarkRowIfPrrTooHigh: true
|
||||||
|
});
|
||||||
|
}
|
||||||
|
}
|
||||||
@@ -439,6 +439,145 @@
|
|||||||
" lastUpdatedElementId = 'last_updated')"
|
" lastUpdatedElementId = 'last_updated')"
|
||||||
]
|
]
|
||||||
},
|
},
|
||||||
|
{
|
||||||
|
"cell_type": "markdown",
|
||||||
|
"id": "6c302a04",
|
||||||
|
"metadata": {},
|
||||||
|
"source": [
|
||||||
|
"# Symptoms caused by Drugs (EudraVigilance)\n"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"cell_type": "code",
|
||||||
|
"execution_count": null,
|
||||||
|
"id": "fb02ce7c",
|
||||||
|
"metadata": {},
|
||||||
|
"outputs": [],
|
||||||
|
"source": [
|
||||||
|
"from SymptomsCausedByVaccines.DataFrameFilter import DataFrameFilter\n",
|
||||||
|
"from SymptomsCausedByVaccines.HtmlUpdater import updateHtmlFile, updateHtmlFile4SymptomsCausedByCOVIDLots\n",
|
||||||
|
"from SymptomsCausedByVaccines.PrrSeriesFactory import PrrSeriesFactory\n",
|
||||||
|
"from SymptomsCausedByVaccines.PrrSeriesTransformer import PrrSeriesTransformer\n",
|
||||||
|
"from SymptomsCausedByVaccines.ProportionalReportingRatiosPersister import saveProportionalReportingRatios\n",
|
||||||
|
"import os\n",
|
||||||
|
"import pandas as pd"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"cell_type": "code",
|
||||||
|
"execution_count": null,
|
||||||
|
"id": "4ad05656",
|
||||||
|
"metadata": {},
|
||||||
|
"outputs": [],
|
||||||
|
"source": [
|
||||||
|
"prrByVaccineAndSymptom = pd.read_csv(\n",
|
||||||
|
" 'data/prrByDrugAndSymptom-EudraVigilance-10.csv',\n",
|
||||||
|
" index_col = 'DRUG')\n",
|
||||||
|
"prrByVaccineAndSymptom"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"cell_type": "code",
|
||||||
|
"execution_count": null,
|
||||||
|
"id": "7aed1621",
|
||||||
|
"metadata": {},
|
||||||
|
"outputs": [],
|
||||||
|
"source": [
|
||||||
|
"prrByVaccineAndSymptom = DataFrameFilter.withoutZeroRowsAndZeroColumns(prrByVaccineAndSymptom)\n",
|
||||||
|
"prrByVaccineAndSymptom"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"cell_type": "code",
|
||||||
|
"execution_count": null,
|
||||||
|
"id": "588aaa2b",
|
||||||
|
"metadata": {},
|
||||||
|
"outputs": [],
|
||||||
|
"source": [
|
||||||
|
"prrByVaccineBySymptom = PrrSeriesFactory.getPrrByVaccineBySymptom(prrByVaccineAndSymptom)\n",
|
||||||
|
"prrByVaccineBySymptom"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"cell_type": "code",
|
||||||
|
"execution_count": null,
|
||||||
|
"id": "379d9730",
|
||||||
|
"metadata": {},
|
||||||
|
"outputs": [],
|
||||||
|
"source": [
|
||||||
|
"prrBySymptomByVaccine = PrrSeriesFactory.getPrrBySymptomByVaccine(prrByVaccineAndSymptom)\n",
|
||||||
|
"prrBySymptomByVaccine"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"cell_type": "code",
|
||||||
|
"execution_count": null,
|
||||||
|
"id": "0cfd4c66",
|
||||||
|
"metadata": {},
|
||||||
|
"outputs": [],
|
||||||
|
"source": [
|
||||||
|
"prrByVaccineBySymptomWithoutZeroPrrs = PrrSeriesTransformer.filterByNonZeroPrrs(prrByVaccineBySymptom)\n",
|
||||||
|
"prrByVaccineBySymptomWithoutZeroPrrs"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"cell_type": "code",
|
||||||
|
"execution_count": null,
|
||||||
|
"id": "86da9cb7",
|
||||||
|
"metadata": {},
|
||||||
|
"outputs": [],
|
||||||
|
"source": [
|
||||||
|
"prrBySymptomByVaccineWithHighPrrs = PrrSeriesTransformer.filterPrrs(prrBySymptomByVaccine, lambda prr: prr >= 2)\n",
|
||||||
|
"prrBySymptomByVaccineWithHighPrrs"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"cell_type": "code",
|
||||||
|
"execution_count": null,
|
||||||
|
"id": "b41b60c7",
|
||||||
|
"metadata": {},
|
||||||
|
"outputs": [],
|
||||||
|
"source": [
|
||||||
|
"webAppBaseDir = os.getcwd() + '/../docs/SymptomsCausedByDrugs'"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"cell_type": "code",
|
||||||
|
"execution_count": null,
|
||||||
|
"id": "26f72e75",
|
||||||
|
"metadata": {},
|
||||||
|
"outputs": [],
|
||||||
|
"source": [
|
||||||
|
"saveProportionalReportingRatios(\n",
|
||||||
|
" prrByVaccineBySymptomWithoutZeroPrrs,\n",
|
||||||
|
" directory = os.path.normpath(webAppBaseDir + '/data/ProportionalReportingRatios/symptoms'))"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"cell_type": "code",
|
||||||
|
"execution_count": null,
|
||||||
|
"id": "5bfdcbdd",
|
||||||
|
"metadata": {},
|
||||||
|
"outputs": [],
|
||||||
|
"source": [
|
||||||
|
"saveProportionalReportingRatios(\n",
|
||||||
|
" prrBySymptomByVaccineWithHighPrrs,\n",
|
||||||
|
" directory = os.path.normpath(webAppBaseDir + '/data/ProportionalReportingRatios/vaccines'))"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"cell_type": "code",
|
||||||
|
"execution_count": null,
|
||||||
|
"id": "cc97b8d4",
|
||||||
|
"metadata": {},
|
||||||
|
"outputs": [],
|
||||||
|
"source": [
|
||||||
|
"updateHtmlFile(\n",
|
||||||
|
" symptoms = list(prrByVaccineAndSymptom.columns),\n",
|
||||||
|
" vaccines = list(prrByVaccineAndSymptom.index),\n",
|
||||||
|
" htmlFile = os.path.normpath(webAppBaseDir + '/index.html'))"
|
||||||
|
]
|
||||||
|
},
|
||||||
{
|
{
|
||||||
"cell_type": "markdown",
|
"cell_type": "markdown",
|
||||||
"id": "3e47c62c",
|
"id": "3e47c62c",
|
||||||
|
|||||||
@@ -1,3 +1,5 @@
|
|||||||
|
import html
|
||||||
|
|
||||||
def getVaccineOptions(vaccines, defaultOptionText):
|
def getVaccineOptions(vaccines, defaultOptionText):
|
||||||
return _getOptionsWithDefaultOption(defaultOptionText = defaultOptionText, values = vaccines)
|
return _getOptionsWithDefaultOption(defaultOptionText = defaultOptionText, values = vaccines)
|
||||||
|
|
||||||
@@ -15,4 +17,4 @@ def _getOptions(values):
|
|||||||
|
|
||||||
|
|
||||||
def _getOption(value):
|
def _getOption(value):
|
||||||
return '<option value="{value}">{value}</option>'.format(value=value)
|
return '<option value="{value}">{value}</option>'.format(value = html.escape(value))
|
||||||
|
|||||||
Reference in New Issue
Block a user