Japan¶

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In [1]:
import datetime
import time

start = datetime.datetime.now()
print(f"Notebook executed on: {start.strftime('%d/%m/%Y %H:%M:%S%Z')} {time.tzname[time.daylight]}")

Notebook executed on: 07/03/2023 09:35:31 CEST
In [2]:
%config InlineBackend.figure_formats = ['svg']
from oscovida import *
In [3]:
overview("Japan", weeks=5);
2023-03-07T09:35:35.428948 image/svg+xml Matplotlib v3.7.1, https://matplotlib.org/ 30 Jan 06 Feb 13 Feb 20 Feb 27 Feb 06 Mar 50 50 100 100 150 150 200 200 250 250 7-day incidence rate (per 100K people) 58.7 Japan, last 5 weeks, last data point from 2023-03-06 30 Jan 06 Feb 13 Feb 20 Feb 27 Feb 06 Mar 0 10 20 30 40 daily change normalised per 100K 30 Jan 06 Feb 13 Feb 20 Feb 27 Feb 06 Mar 0.0 0.1 0.2 0.3 daily change normalised per 100K 30 Jan 06 Feb 13 Feb 20 Feb 27 Feb 06 Mar 0.8 0.8 1.0 1.0 1.2 1.2 R & growth factor (based on cases) Japan cases daily growth factor Japan cases daily growth factor (rolling mean) Japan estimated R (using cases) 30 Jan 06 Feb 13 Feb 20 Feb 27 Feb 06 Mar 0.8 0.8 1.0 1.0 1.2 1.2 R & growth factor (based on deaths) Japan deaths daily growth factor Japan deaths daily growth factor (rolling mean) Japan estimated R (using deaths) 30 Jan 06 Feb 13 Feb 20 Feb 27 Feb 06 Mar 0 1000 2000 3000 cases doubling time [days] Japan doubling time cases (rolling mean) Japan doubling time deaths (rolling mean) 0 12648 25295 37943 50591 daily change Japan new cases (rolling 7d mean) Japan new cases 0.0 126.5 253.0 379.4 daily change Japan new deaths (rolling 7d mean) Japan new deaths 0 480 960 1440 deaths doubling time [days]
In [4]:
overview("Japan");
2023-03-07T09:35:44.691106 image/svg+xml Matplotlib v3.7.1, https://matplotlib.org/ Jan 20 May 20 Sep 20 Jan 21 May 21 Sep 21 Jan 22 May 22 Sep 22 Jan 23 May 23 0 0 500 500 1000 1000 7-day incidence rate (per 100K people) 58.7 Japan, last data point from 2023-03-06 Jan 20 May 20 Sep 20 Jan 21 May 21 Sep 21 Jan 22 May 22 Sep 22 Jan 23 May 23 0 50 100 150 200 daily change normalised per 100K Jan 20 May 20 Sep 20 Jan 21 May 21 Sep 21 Jan 22 May 22 Sep 22 Jan 23 May 23 0.0 0.1 0.2 0.3 daily change normalised per 100K Jan 20 May 20 Sep 20 Jan 21 May 21 Sep 21 Jan 22 May 22 Sep 22 Jan 23 May 23 0.8 0.8 1.0 1.0 1.2 1.2 R & growth factor (based on cases) Japan cases daily growth factor Japan cases daily growth factor (rolling mean) Japan estimated R (using cases) Jan 20 May 20 Sep 20 Jan 21 May 21 Sep 21 Jan 22 May 22 Sep 22 Jan 23 May 23 0.8 0.8 1.0 1.0 1.2 1.2 R & growth factor (based on deaths) Japan deaths daily growth factor Japan deaths daily growth factor (rolling mean) Japan estimated R (using deaths) Jan 20 May 20 Sep 20 Jan 21 May 21 Sep 21 Jan 22 May 22 Sep 22 Jan 23 May 23 0 5000 10000 15000 cases doubling time [days] Japan doubling time cases (rolling mean) Japan doubling time deaths (rolling mean) 0 63238 126476 189715 252953 daily change Japan new cases (rolling 7d mean) Japan new cases 0.0 126.5 253.0 379.4 daily change Japan new deaths (rolling 7d mean) Japan new deaths 0 4646 9292 13938 deaths doubling time [days]
In [5]:
compare_plot("Japan", normalise=True);
2023-03-07T09:35:49.178997 image/svg+xml Matplotlib v3.7.1, https://matplotlib.org/ 2020-01 2020-05 2020-09 2021-01 2021-05 2021-09 2022-01 2022-05 2022-09 2023-01 2023-05 0.001 0.001 0.1 0.1 10 10 1000 1000 daily new cases per 100K people (rolling 7-day mean) Daily cases (top) and deaths (below) for Japan Japan Germany Australia Poland Korea, South Belarus Switzerland US 2020-01 2020-05 2020-09 2021-01 2021-05 2021-09 2022-01 2022-05 2022-09 2023-01 2023-05 0.0001 0.0001 0.001 0.001 0.01 0.01 0.1 0.1 1 1 daily new deaths per 100K people (rolling 7-day mean) Japan Germany Australia Poland Korea, South Belarus Switzerland US
In [6]:
# load the data
cases, deaths = get_country_data("Japan")

# get population of the region for future normalisation:
inhabitants = population("Japan")
print(f'Population of "Japan": {inhabitants} people')

# compose into one table
table = compose_dataframe_summary(cases, deaths)

# show tables with up to 1000 rows
pd.set_option("display.max_rows", 1000)

# display the table
table

Population of "Japan": 126476458 people
Out[6]:
total cases daily new cases total deaths daily new deaths
2023-03-06 33286633 4263 72813 34
2023-03-05 33282370 8731 72779 50
2023-03-04 33273639 10431 72729 81
2023-03-03 33263208 10522 72648 67
2023-03-02 33252686 11506 72581 87
... ... ... ... ...
2020-01-27 4 0 0 0
2020-01-26 4 2 0 0
2020-01-25 2 0 0 0
2020-01-24 2 0 0 0
2020-01-23 2 0 0 0

1139 rows × 4 columns

Explore the data in your web browser¶

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Acknowledgements:¶

  • Johns Hopkins University provides data for countries
  • Robert Koch Institute provides data for within Germany
  • Atlo Team for gathering and providing data from Hungary (https://atlo.team/koronamonitor/)
  • Open source and scientific computing community for the data tools
  • Github for hosting repository and html files
  • Project Jupyter for the Notebook and binder service
  • The H2020 project Photon and Neutron Open Science Cloud (PaNOSC)
In [7]:
print(f"Download of data from Johns Hopkins university: cases at {fetch_cases_last_execution()} and "
      f"deaths at {fetch_deaths_last_execution()}.")

Download of data from Johns Hopkins university: cases at 07/03/2023 09:31:22 and deaths at 07/03/2023 09:31:21.
In [8]:
# to force a fresh download of data, run "clear_cache()"
In [9]:
print(f"Notebook execution took: {datetime.datetime.now()-start}")

Notebook execution took: 0:00:18.382063