Canada¶

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  • Plots are explained at http://oscovida.github.io/plots.html
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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 09:32:54 CEST
In [2]:
%config InlineBackend.figure_formats = ['svg']
from oscovida import *
In [3]:
overview("Canada", weeks=5);
2023-03-07T09:32:58.506770 image/svg+xml Matplotlib v3.7.1, https://matplotlib.org/ 30 Jan 06 Feb 13 Feb 20 Feb 27 Feb 06 Mar 22 22 24 24 26 26 28 28 30 30 7-day incidence rate (per 100K people) 24.6 Canada, last 5 weeks, last data point from 2023-03-06 30 Jan 06 Feb 13 Feb 20 Feb 27 Feb 06 Mar 0 5 10 15 daily change normalised per 100K 30 Jan 06 Feb 13 Feb 20 Feb 27 Feb 06 Mar 0.0 0.1 0.2 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) Canada cases daily growth factor Canada cases daily growth factor (rolling mean) Canada 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) Canada deaths daily growth factor Canada deaths daily growth factor (rolling mean) Canada estimated R (using deaths) 30 Jan 06 Feb 13 Feb 20 Feb 27 Feb 06 Mar 0 1000 2000 3000 4000 cases doubling time [days] Canada doubling time cases (rolling mean) Canada doubling time deaths (rolling mean) 0 1912 3825 5737 daily change Canada new cases (rolling 7d mean) Canada new cases 0.0 38.2 76.5 daily change Canada new deaths (rolling 7d mean) Canada new deaths 0 1000 2000 3000 4000 deaths doubling time [days]
In [4]:
overview("Canada");
2023-03-07T09:33:07.153957 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 0 200 200 400 400 600 600 7-day incidence rate (per 100K people) 24.6 Canada, 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 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 0.2 0.4 0.6 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) Canada cases daily growth factor Canada cases daily growth factor (rolling mean) Canada 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) Canada deaths daily growth factor Canada deaths daily growth factor (rolling mean) Canada 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 1000 2000 3000 4000 cases doubling time [days] Canada doubling time cases (rolling mean) Canada doubling time deaths (rolling mean) 0 19123 38246 57369 daily change Canada new cases (rolling 7d mean) Canada new cases 0.0 76.5 153.0 229.5 daily change Canada new deaths (rolling 7d mean) Canada new deaths 0 1473 2946 4418 5891 deaths doubling time [days]
In [5]:
compare_plot("Canada", normalise=True);
2023-03-07T09:33:11.189697 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 Canada Canada 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) Canada Germany Australia Poland Korea, South Belarus Switzerland US
In [6]:
# load the data
cases, deaths = get_country_data("Canada")

# get population of the region for future normalisation:
inhabitants = population("Canada")
print(f'Population of "Canada": {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 "Canada": 38246108 people
Out[6]:
total cases daily new cases total deaths daily new deaths
2023-03-06 4611428 1677 51592 37
2023-03-05 4609751 293 51555 0
2023-03-04 4609458 416 51555 7
2023-03-03 4609042 586 51548 12
2023-03-02 4608456 4661 51536 81
... ... ... ... ...
2020-01-27 3 0 0 0
2020-01-26 3 0 0 0
2020-01-25 3 0 0 0
2020-01-24 3 1 0 0
2020-01-23 2 2 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: 0:00:17.132062