covid19dh 0.1.12

Unified data hub for a better understanding of COVID-19 https://covid19datahub.io

Python Interface to COVID-19 Data Hub

Python package covid19dh provides access to COVID-19 data from unified data hub.

It is part of COVID-19 Data Hub project.

Setup and usage

Install from pip with

pip install covid19dh

Importing main covid19() function with

from covid19dh import covid19

x = covid19("ITA") # load data

Package is regularly updated. Update with

pip install --upgrade covid19dh

Parametrization

Country

Country specifies an administrative region, that the data are fetched from. This is connected with source data comes from. It can be given as ISO3, ISO2, numeric ISO or country name (case-insensitively).

Fetching data from a particular country is done with

x = covid19("ESP")

List of ISO codes can be found here.

Filter can also specify multiple countries at the same time

x = covid19(["ESP","PT","andorra",250])

Country can be omitted, then whole world data is used.

x = covid19()

Date filter

Date can be specified with datetime.datetime, datetime.date or as a str in format YYYY-mm-dd.

from datetime import datetime

x = covid19("SWE", start = datetime(2020,4,1), end = "2020-05-01")

Level

Levels work the same way as in all the other our data fetchers.

1. Country level
2. State, region or canton level
3. City or municipality level

from datetime import date

x = covid19("USA", level = 2, start = date(2020,5,1))

Cache

Library keeps downloaded data in simple way during runtime. By default, using the cached data is enabled.

Caching can be disabled (e.g. for long running programs) by

x = covid19("FRA", cache=False)

Citations

Dataset citations are printed by default on stdout.

from covid19dh import covid19
x = covid19("CZE") 

Czech Statistical Office (2018), https://www.czso.cz/csu/czso/demograficka-rocenka-kraju-2009-az-2018

Johns Hopkins Center for Systems Science and Engineering (2020), https://github.com/CSSEGISandData/COVID-19

Ministery of Health of Czech Republic (2020), https://onemocneni-aktualne.mzcr.cz/

Our World in Data (2020), https://github.com/owid/covid-19-data

Hale Thomas, Sam Webster, Anna Petherick, Toby Phillips, and Beatriz Kira (2020). Oxford COVID-19 Government Response Tracker, Blavatnik School of Government.

World Bank Open Data (2018), https://data.worldbank.org/indicator/SP.POP.TOTL

Guidotti, E., Ardia, D., (2020), "COVID-19 Data Hub", Working paper, doi: 10.13140/RG.2.2.11649.81763.

This feature can be turned off by setting verbose to False.

from covid19dh import covid19
x = covid19("CZE", verbose = False) 

You can separately get the reference data or the string citations as

from covid19dh import covid19,cite
x = covid19("ITA")
refs = cite(x, raw=True)
citations = cite(x)

Pandas dataframe refs has following structure

                                               title                                             author  year                     institution  ... bibtype iso_alpha_3 administrative_area_level  data_type
0                           Czech Statistical Office                                                     2018                                  ...                   1                         1          1
1  Johns Hopkins Center for Systems Science and E...                                                     2020                                  ...                   5                         5          5
2              Ministery of Health of Czech Republic                                                     2020                                  ...                   2                         2          2
3                                  Our World in Data                                                     2020                                  ...                   1                         1          1
4        Oxford COVID-19 Government Response Tracker  Hale Thomas, Sam Webster, Anna Petherick, Toby...  2020  Blavatnik School of Government  ...                  10                        10         10
5                               World Bank Open Data                                                     2018                                  ...                   1                         1          1

[6 rows x 10 columns]

List citations is equal to

[
    'Czech Statistical Office (2018), https://www.czso.cz/csu/czso/demograficka-rocenka-kraju-2009-az-2018',
    'Johns Hopkins Center for Systems Science and Engineering (2020), https://github.com/CSSEGISandData/COVID-19',
    'Ministery of Health of Czech Republic (2020), https://onemocneni-aktualne.mzcr.cz/',
    'Our World in Data (2020), https://github.com/owid/covid-19-data',
    'Hale Thomas, Sam Webster, Anna Petherick, Toby Phillips, and Beatriz Kira (2020). Oxford COVID-19 Government Response Tracker, Blavatnik School of Government.',
    'World Bank Open Data (2018), https://data.worldbank.org/indicator/SP.POP.TOTL',
    'Guidotti, E., Ardia, D., (2020), "COVID-19 Data Hub", Working paper, doi: 10.13140/RG.2.2.11649.81763.'
]

Contribution

Developed by Martin Benes.

The goal of COVID-19 Data Hub is to provide the research community with a unified data hub by collecting worldwide fine-grained case data, merged with exogenous variables helpful for a better understanding of COVID-19.

Join us on GitHub.