Overview
The purpose of the SaviR package is to collate data from various publicly available Coronavirus 2019 (COVID-19) data sources for analysis and visualization. This package is divided into two main sections: COVID Analytical Datasets (COVAD) and COVID Data Visualizations (COVIS).
Data Sources
-
World Health Organization (WHO) - COVID-19 Cases and Deaths (China data includes Taiwan, Hong Kong, and Macua data)
-
Johns Hopkins University (JHU) - COVID-19 Cases and Deaths (China, Taiwan, Hong Kong, and Macua data are disaggregated)
-
Our World In Data (OWID) - COVID-19 Vaccines, Tests, and Hospitalizations
- United Nations - Population Estimates
- World Bank - Country Income Classifications
Note: Please refer to original data sources to ensure data accuracy as data models could have changed
Installation and Package Load
You can install the released version of SaviR from Github with:
devtools::install_github("CDCgov/SaviR")You can also use the code above to update your SaviR package as needed. When loading SaviR, be sure to load in this package last.
COVAD - COVID Analytical Datasets
| Metadata Functions | Get Functions | Calculation Functions |
|---|---|---|
| get_onetable | get_combined_table | calc_add_risk |
| get_country_coords | get_covid_df | calc_vax_carryforward |
| get_vax_dates | get_testing | |
| get_vax_manufacturers | get_testing_long | |
| get_vax | ||
| get_vax_by_type | ||
| get_hospdata | ||
| get_gdeltnews |
- Metadata is stored in this package and can be called:
metadata <- onetable
country_coordinates <- country_coords COVIS - COVID Visualizations
| Plot Functions | Map Functions | Table Functions |
|---|---|---|
| plot_epicurve | map_template | table_10mostcases |
| plot_epicurve_ind | map_burden | table_10incidence |
| plot_epicurve_epidouble | map_trend | table_10percentchange |
| plot_epicurve_dailydouble | map_vaccinations | table_10vaccinations |
| plot_riskmatrix | table_countriesofconcern | |
| plot_vaxcoverage | ||
| plot_vaxcoverage_pop | ||
| plot_vaxcurve |
Public Domain Standard Notice
This repository constitutes a work of the United States Government and is not subject to domestic copyright protection under 17 USC § 105. This repository is in the public domain within the United States, and copyright and related rights in the work worldwide are waived through the CC0 1.0 Universal public domain dedication. All contributions to this repository will be released under the CC0 dedication. By submitting a pull request you are agreeing to comply with this waiver of copyright interest.
License Standard Notice
The repository utilizes code licensed under the terms of the Apache Software License and therefore is licensed under ASL v2 or later. This source code in this repository is free: you can redistribute it and/or modify it under the terms of the Apache Software License version 2, or (at your option) any later version. This source code in this repository is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the Apache Software License for more details. You should have received a copy of the Apache Software License along with this program. If not, see http://www.apache.org/licenses/LICENSE-2.0.html The source code forked from other open source projects will inherit its license.
Privacy Standard Notice
This repository contains only non-sensitive, publicly available data and information. All material and community participation is covered by the Disclaimer and Code of Conduct. For more information about CDC’s privacy policy, please visit http://www.cdc.gov/other/privacy.html.
Contributing Standard Notice
Anyone is encouraged to contribute to the repository by forking and submitting a pull request. (If you are new to GitHub, you might start with a basic tutorial.) By contributing to this project, you grant a world-wide, royalty-free, perpetual, irrevocable, non-exclusive, transferable license to all users under the terms of the Apache Software License v2 or later. All comments, messages, pull requests, and other submissions received through CDC including this GitHub page may be subject to applicable federal law, including but not limited to the Federal Records Act, and may be archived. Learn more at http://www.cdc.gov/other/privacy.html.