covid19jp : R package for Japanese Covid-19 Datasets

This package provides ready to use Japanese covid-19 datasets.

• ?jp_daily: Daily nation-level dataset of Japanese covid-19 situation.
• ?pref_daily: Daily prefecture-level dataset of Japanese covid-19 situation.
• ?pref_weekly: Weekly prefecture-level dataset of Japanese covid-19 situation (which contains some additional columns like hospital capacity not appear in ?pref_daily).
• ?pref: Master dataset for Japanese prefectures.

Notes

• CSV/JSON format files are also available here. See also Dataset detail below.

• Due to the data source format changes, updating datasets in development version might delay.

Installation and update

Install from this github repo. (currently, removed from CRAN)

# Install the development version from GitHub
remotes::install_github("kj-9/covid19jp", ref = "master", upgrade = "never")

We update datasets. Please run update_date to get latest datasets,

# update your datasets
covid19jp::update_data()

Dataset detail

jp_daily

Daily nation-level dataset of Japanese covid-19 situation.

Columns

name	description	description in Japanese
date	Date in JST	日本時間での日付
tests	Number of tests	PCR 検査実施人数
newCases	Number of new cases	陽性者数
activeCases	Number of current active cases	入院治療等を要する者の数
severeCases	Number of current severe cases	重症者数
recovered	Total number of recovered cases	退院又は療養解除となった者の数（累積）
deaths	Total number of deaths	死亡者数（累積）
rt	Effective reproduction number	実効再生産数

Data Source

• Toyo Keizai Online "Coronavirus Disease (COVID-19) Situation Report in Japan" by Kazuki OGIWARA (Originally from Japanese MHLW website. See above link to github repo.)

pref_daily

Daily prefecture-level dataset of Japanese covid-19 situation.

Columns

name	description	description in Japanese
prefCode	Prefecture code	都道府県番号
prefJP	Prefecture name in Japanese	都道府県名(日本語)
prefEN	Prefecture name in English	都道府県名(英語)
date	Date in JST	日本時間での日付
tests	Total number of tests	PCR 検査実施人数 （累積）
newCases	Total number of new cases	陽性者数（累積）
activeCases	Number of current active cases	入院治療等を要する者の数
severeCases	Number of current severe cases	重症者数
recovered	Total number of recovered cases	退院又は療養解除となった者の数（累積）
deaths	Total number of deaths	死亡者数（累積）
rt	Effective reproduction number	実効再生産数

Data Source

• Toyo Keizai Online "Coronavirus Disease (COVID-19) Situation Report in Japan" by Kazuki OGIWARA (Originally from Japanese MHLW website. See above link to github repo.)

pref_weekly

Weekly prefecture-level dataset of Japanese covid-19 situation (which contains some additional columns like hospital capacity not appear in pref_daily).

• Currently, only dataset after 2020-09-02 is available.

Columns

name	description	description in Japanese
prefCode	prefecture code	都道府県番号
prefJP	Name of the prefecture in Japanese	都道府県名(日本語)
prefEN	Name of the prefecture in English	都道府県名(英語)
date	Date in JST	日本時間での日付
activeCases	Number of current active cases	入院治療等を要する者の数
hospitalizedCases	Number of current hospitalized cases	入院者数（入院確定者数を含む）
hospitalizedCasesPhase	Current alert phase level for hospitalized cases	入院者現フェーズ
hospitalizedCasesMaxPhase	Maximum alert phase level for hospitalized cases	入院者最終フェーズ
hospitalizedCasesCap	Current bed capacity for hospitalized cases	入院者確保病床数
hospitalizedCasesCapPlanned	Bed capacity for hospitalized cases planned for the maximum alert phase	最終フェーズにおける入院者即応病床（計画）数
hospitalizedCasesUTE	Current hospital (bed) utilization rate for hospitalized cases	確保病床数に対する入院者使用率
severeCases	Number of current severe cases	重症者数
severeCasesPhase	Current alert phase level for severe cases	重症者現フェーズ
severeCasesMaxPhase	Maximum alert phase level for severe cases	重症者最終フェーズ
severeCasesCap	Current bed capacity for severe cases	重症者確保病床数
severeCaseaCapPlanned	Bed capacity for severe cases planned for the maximum alert phase	最終フェーズにおける重症者即応病床（計画）数
severeCasesUTE	Current hospital (bed) utilization rate for severe cases	確保病床数に対する重症者使用率
atHotelCases	Number of current cases staying at hotels (or other accommodation facilities)	宿泊療養者数
atHotelCasesPhase	Current alert phase level for cases staying at hotels	宿泊療養現フェーズ
atHotelCasesMaxPhase	Maximum alert phase level for cases staying at hotels	宿泊療養最終フェーズ
atHotelCasesCap	Current room capacity for cases staying at hotels	宿泊療養確保居室数
atHotelCasesCapPlanned	Room capacity for cases staying at hotels planned for the maximum alert phase	最終フェーズにおける宿泊療養施設居室（計画）数
atHotelCasesUTE	Current hotel (room) utilization rate for cases staying at hotels	確保居室数に対する宿泊療養者使用率
atHomeCases	Number of current cases staying at home	自宅療養者数
atWelfareFacilityCases	Number of current cases staying at welfare facilities	社会福祉施設等療養者数
unconfirmedCases	Number of current unconfirmed cases	確認中の人数

Data Source

• Japanese MHLW website: https://www.mhlw.go.jp/stf/seisakunitsuite/newpage_00023.html
• Because of the diffenrence in the reporting criteria, MHLW reports may not match reports from each prefecture.

pref

Master dataset for Japanese prefectures.

Columns

name	description	description in Japanese
prefCode	Prefecture code	都道府県番号
prefJP	Prefecture name in Japanese	都道府県名(日本語)
prefEN	Prefecture name in English	都道府県名(英語)
population	Population estimate in thousands in 2018	2018 年推計人口(千人)

Data Source

• Statistics Bureau of Japan (xlsx file): https://www.stat.go.jp/data/nihon/zuhyou/n200200200.xlsx

Reference

The function update_data is heavily referred to coronavirus package. Thanks!