COVID19-world: a shiny application to perform comprehensive country-specific data visualization for SARS-CoV-2 epidemic
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(2020) 20:235
SOFTWARE
Open Access
COVID19-world: a shiny application to perform comprehensive country-specific data visualization for SARS-CoV-2 epidemic Cristian Tebé1* , Joan Valls2, Pau Satorra1 and Aurelio Tobías3
Abstract Background: Data analysis and visualization is an essential tool for exploring and communicating findings in medical research, especially in epidemiological surveillance. Results: Data on COVID-19 diagnosed cases and mortality, from January 1st, 2020, onwards is collected automatically from the European Centre for Disease Prevention and Control (ECDC). We have developed a Shiny application for data visualization and analysis of several indicators to follow the SARS-CoV-2 epidemic using ECDC data. A country-specific tool for basic epidemiological surveillance, in an interactive and user-friendly manner. The available analyses cover time trends and projections, attack rate, population fatality rate, case fatality rate, and basic reproduction number. Conclusions: The COVID19-World online web application systematically produces daily updated country-specific data visualization and analysis of the SARS-CoV-2 epidemic worldwide. The application may help for a better understanding of the SARS-CoV-2 epidemic worldwide. Keywords: SARS-CoV-2, COVID-19, Epidemic, Data visualization, Poisson regression, Mortality, Mortality rate, Case fatality rate, Basic reproduction number
Background The first confirmed case of SARS-CoV-2 in China was reported to the WHO country office in China on December 31st, 2019 [1]. The outbreak was declared a public health emergency of international concern on January 30th, 2020 [1]. Since then, up to June 17th, more than 210 countries have been affected worldwide, 8,162, 276 people have been diagnosed, 443,685 have died due to the SARS-CoV-2 pandemic [2] and numbers are still growing. Data analysis and visualization is an essential tool for exploring and communicating findings in medical research, especially in epidemiological surveillance [3]. It can help * Correspondence: [email protected] 1 Biostatistics Unit, Institut d’Investigació Biomèdica de Bellvitge (IDIBELL), Hospitalet de Llobregat, 199 08908 L’Hospitalet de Llobregat, Barcelona, Spain Full list of author information is available at the end of the article
researchers and policymakers to identify trends that could be overlooked if the data were reviewed in tabular form. Here, we present the worldwide extension of a previous Shiny application for data visualization and analysis of several indicators to follow the SARS-CoV-2 epidemic in Spain [4]. With this extension, conceived as an independent tool, specific visualizations for any country worldwide can be produced to assess the time evolution of the pandemic, beyond the usual dashboards showing geographic variations [5]. Data is directly downloaded from the European Centre for Disease Prevention and Control (ECDC) each time that a user interacts with the application. Therefore, we have now developed the COVID19-World application, which systematically produces c
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