Understanding the coronavirus (SARS-CoV-2)

Stay informed, make your own conclusions.

covid-tool is a multi-language Linux program prepared to provide you with the latest information on COVID-19 cases and deaths. Using the World Health Organization Database for Corona Virus Disease (COVID-19), covid-tool allows the user to rank countries by cases or deaths, and to retrieve and graph data by country.

The goal of this project is to build an understanding of the virus behaviour and evolution by graphing data.

Important:

• To graph data, the R software environment for statistical computing and graphics must be present on your system. Information on how to download and install the latest binaries can be found here.
• wget is used to download the latest available database, therefore it is a requirement. Information on how to download and install the latest binaries can be found here.

Get the latest information on SARS-CoV-2

• https://www.cdc.gov/coronavirus/2019-ncov/
• https://www.who.int/emergencies/diseases/novel-coronavirus-2019
• https://coronavirus.jhu.edu/map.html

About the scripts

graph.sh and updatedatabase.sh are invoked within covid-tool, but were created such that the user can run them as separate tools.

graph.R is wrapped and executed by graph.sh. Running graph.R on its own is discouraged.

About the database

DISCLAIMER: The consulted database is not of my authorship.

WHODatabase is the WHO Coronavirus Disease (COVID-19) database, a collection of all publicly available data about new/cumulative cases and new/cumulative deaths reported to WHO. The information available in the database is downloaded by updatedatabase.sh using the URL provided the DATABASE_URL file.

About the repository

• dashboards containts all the information and graphs of the countries whose data has been generated by covid-tool. It also conatains COVID-19-global-cases.csv and COVID-19-global-deaths.csv generated CSV files. These files contain a ranking of all countries by cumulative cases and cumulative deaths respectively, whose data has been reported to WHO.
• database houses all downloaded databases.
• src houses the source files for covid-tool.

Useful resources

WHO (COVID-19) Homepage

• https://covid19.who.int/ -- WHO Coronavirus Disease (COVID-19) Dashboard

Coronavirus-related publications

• https://www.nejm.org/doi/full/10.1056/NEJMoa2022483?query=featured_coronavirus
• https://www.futuremedicine.com/doi/pdf/10.2217/fvl-2018-0008
• https://www.sciencedirect.com/science/article/pii/S2095177920302045
• https://www.nejm.org/doi/full/10.1056/NEJMoa2024671?query=featured_coronavirus
• http://korkinlab.org/wuhan
• https://github.com/mattroconnor/deep_learning_coronavirus_cure
• https://www.nejm.org/coronavirus

Epidemic modeling

• https://gabgoh.github.io/COVID/index.html
• http://epidemicforecasting.org

Antibodies

• https://www.medrxiv.org/content/10.1101/2020.07.09.20148429v1.full.pdf
• https://www.medrxiv.org/content/10.1101/2020.05.11.20086439v2.full.pdf