covid19.Explorer : a web application and R package to explore United States COVID-19 data
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Abstract
Appearing at the end of 2019, a novel virus (later identified as SARS-CoV-2) was characterized in the city of Wuhan in Hubei Province, China. As of the time of writing, the disease caused by this virus (known as COVID-19) has already resulted in over three million deaths worldwide. SARS-CoV-2 infections and deaths, however, have been highly unevenly distributed among age groups, sexes, countries, and jurisdictions over the course of the pandemic. Herein, I present a tool (the covid19.Explorer R package and web application) that has been designed to explore and analyze publicly available United States COVID-19 infection and death data from the 2020/21 U.S. SARS-CoV-2 pandemic. The analyses and visualizations that this R package and web application facilitate can help users better comprehend the geographic progress of the pandemic, the effectiveness of non-pharmaceutical interventions (such as lockdowns and other measures, which have varied widely among U.S. states), and the relative risks posed by COVID-19 to different age groups within the U.S. population. The end result is an interactive tool that will help its users develop an improved understanding of the temporal and geographic dynamics of the SARS-CoV-2 pandemic, accessible to lay people and scientists alike.
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SciScore for 10.1101/2021.02.15.21251782: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
NIH rigor criteria are not applicable to paper type.Table 2: Resources
Software and Algorithms Sentences Resources Explorer package in turn depends on the CRAN R packages maps (Becker et al., 2018), phytools (Revell, 2012), randomcoloR (Ammar, 2019), and RColorBrewer (Neuwirth, 2014). CRANsuggested: (CRAN, RRID:SCR_003005)Explorer are all publicly available and were obtained (unless otherwise indicated) from the United States Centers for Disease Control and Prevention National Center for Health Statistics (https://www.cdc.gov/nchs/) or the United States Census Bureau (https://www.census.gov/). 1.2 Types of functions in covid19. https://www.cdc.gov/nchs/suggested: (National Center for Health …SciScore for 10.1101/2021.02.15.21251782: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
NIH rigor criteria are not applicable to paper type.Table 2: Resources
Software and Algorithms Sentences Resources Explorer package in turn depends on the CRAN R packages maps (Becker et al., 2018), phytools (Revell, 2012), randomcoloR (Ammar, 2019), and RColorBrewer (Neuwirth, 2014). CRANsuggested: (CRAN, RRID:SCR_003005)Explorer are all publicly available and were obtained (unless otherwise indicated) from the United States Centers for Disease Control and Prevention National Center for Health Statistics (https://www.cdc.gov/nchs/) or the United States Census Bureau (https://www.census.gov/). 1.2 Types of functions in covid19. https://www.cdc.gov/nchs/suggested: (National Center for Health Statistics, RRID:SCR_001078)Results from OddPub: Thank you for sharing your code and data.
Results from LimitationRecognizer: An explicit section about the limitations of the techniques employed in this study was not found. We encourage authors to address study limitations.Results from TrialIdentifier: No clinical trial numbers were referenced.
Results from Barzooka: We did not find any issues relating to the usage of bar graphs.
Results from JetFighter: We did not find any issues relating to colormaps.
Results from rtransparent:- Thank you for including a conflict of interest statement. Authors are encouraged to include this statement when submitting to a journal.
- Thank you for including a funding statement. Authors are encouraged to include this statement when submitting to a journal.
- No protocol registration statement was detected.
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