Colombia Covid19 Pipeline

Pipeline to get data sources from Instituto Nacional de Salud - INS related to Covid19 cases daily report in Colombia to create datasets.

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Context

The number of new cases is increasing day by day around the world. This dataset has information about reported cases from 32 Colombia departments.

Here you can find the result from my auto-learning process about data science, this dataset has a daily report from Instituto Nacional de Salud - INS about Covid19 cases reported in Colombia, also has a history report from Instituto Nacional de Salud - INS about Covid19 Samples processed in Colombia.

Content

This dataset uses the INS Covid19 report data source, I did clean the data source and fill the NaN values to generate this dataset with additional attributes like, day of the week, year, and month of the year.

covid19co.csv -> Daily report, Cases reported in Colombia

covid19co_samples_processed.csv -> Daily report, Samples processed in Colombia

covid19co_time_line.csv -> Timeline about cases reported, recuperated, and deceased in Colombia.

covid19co_samples_time_line.csv -> Timeline about samples processed in Colombia.

Date format DD/MM/YYYY for instance: 11/09/2001

This dataset is updated from an automatic pipeline, you can find the GitHub code repository here: Colombia Covid19 Pipeline

Acknowledgements

Dataset is obtained from Instituto Nacional de Salud - INS daily report Covid19 in Colombia. You can get the official dataset here: INS - Official Report

Inspiration

What questions do you want to see answered?

You can view and collaborate with the analysis here: colombia_covid_19_analysis Kaggle Notebook Kernel.

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Requirements

• Python 3:
  • See requirements.txt file.

Source Code

See ./src directory.

Datasets

See ./output directory.

Documentation

Directory	Readme
./chart	README.md
./doc	README.md
./input	README.md
./output	README.md
./src	README.md

How to use

Please read and execute each step below:

Step 1

Create and use Python virtual environment:

$promt> python3 -m venv .venv
$promt> source .venv/bin/activate

Step 2

Install all Python requirements:

$promt> pip3 install -r requirements.txt

Step 3

Run Pipeline script:

$promt> ./run.sh

The Pipeline output is generated within ./output directory.

Step N

Work in progress ...

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Jupyter Nootebook to Python Script

$promt> jupyter nbconvert --to script ./src/covid19co_pipe.ipynb --output covid19co_pipe

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That's all for now ...

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Would you like contribute?

Getting in touch with @sebaxtianbach

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License

MIT License

This work is licensed under a Creative Commons Attribution-ShareAlike 4.0 International License.

About me

https://about.me/sebaxtian