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 detailbelow. -
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!