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https://github.com/aican-research/breast-cancer-stats
:cherry_blossom: Notebooks for making publish-worthy visualizations using WHO breast cancer data
https://github.com/aican-research/breast-cancer-stats
breast-cancer cancer google-colab incidence jupyter jupyter-notebook mortality plotly prevalence statistics stats survival temporal time trend visualization who world-health-organization world-map
Last synced: 3 days ago
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:cherry_blossom: Notebooks for making publish-worthy visualizations using WHO breast cancer data
- Host: GitHub
- URL: https://github.com/aican-research/breast-cancer-stats
- Owner: AICAN-Research
- License: mit
- Created: 2023-08-07T09:28:57.000Z (over 1 year ago)
- Default Branch: main
- Last Pushed: 2024-01-28T20:55:49.000Z (10 months ago)
- Last Synced: 2024-05-21T06:14:18.164Z (6 months ago)
- Topics: breast-cancer, cancer, google-colab, incidence, jupyter, jupyter-notebook, mortality, plotly, prevalence, statistics, stats, survival, temporal, time, trend, visualization, who, world-health-organization, world-map
- Language: Jupyter Notebook
- Homepage:
- Size: 2.48 MB
- Stars: 4
- Watchers: 3
- Forks: 2
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE
Awesome Lists containing this project
README
# [breast-cancer-stats](https://github.com/AICAN-Research/breast-cancer-stats#breast-cancer-stats)
[](https://github.com/DAVFoundation/captain-n3m0/blob/master/LICENSE)
[](https://doi.org/10.5281/zenodo.8232699)
This repository contains useful notebook examples on how to extract and visualize
breast cancer data from the World Health Organization (WHO) database.
## [Examples](https://github.com/AICAN-Research/breast-cancer-stats#examples)
Example notebooks are available in the [apps/](https://github.com/AICAN-Research/breast-cancer-stats/tree/main/apps) directory.
They can also be accessed by clicking their respective CoLab badge below:
| Use case | Notebook | Tests |
| - | - | - |
| Incidence rate world map | | 
|
| Mortality rate world map | | 
|
| Overall cancer statistics | | 
|
| Survival country comparison | | 
|
| Cancer incidence over time | | 
|
| Cancer mortality over time | | 
|
| Cancer incidence over time w.r.t. age | | 
|
| Cancer mortality over time w.r.t. age | | 
|
## [Dependencies](https://github.com/AICAN-Research/breast-cancer-stats#dependencies)
The Notebooks were tested against Python 3.8 on macOS operating system. Continuous integration tests are also performed for all notebooks
on Ubuntu 20.04 operating system (see [here](https://github.com/AICAN-Research/breast-cancer-stats/actions)). They are also compatible with
Google CoLab and should be quite robust against other setups.
The following dependencies were used and are installed as part of the notebooks:
* [pandas](https://pypi.org/project/pandas/)
* [plotly](https://pypi.org/project/plotly/)
* [nbformat](https://pypi.org/project/nbformat/)
* [kaleido](https://pypi.org/project/kaleido/)
## [Troubleshooting](https://github.com/AICAN-Research/breast-cancer-stats#troubleshooting)
Note that all rendered results could be interactive, but we have set Plotly's `show(renderer="png")`,
to enable the result to be shown in the output on CoLab, on GitHub, and locally. To get interactive
figures on CoLab set `show(renderer="colab")`, or locally use the default `show()`. GitHub only support static figures.
## [License](https://github.com/AICAN-Research/breast-cancer-stats#license)
The code in this repository is released under [MIT license](https://github.com/AICAN-Research/breast-cancer-stats/blob/main/LICENSE).
Note that the CSV files originate from WHO-related websites. Global data from [Cancer Today](https://gco.iarc.fr/today/home)
(powered by GLOBOCAN 2020) and Nordic data from [NORDCAN](https://nordcan.iarc.fr/en).
If you use these figures or datasets, please, cite the appropriate
references. Information on how to cite these can be found [here](https://gco.iarc.fr/today/about#references) and
[here](https://nordcan.iarc.fr/en/about), respectively.
## [Citation](https://github.com/AICAN-Research/breast-cancer-stats#citation)
If you found this project useful, please, consider citing it in your research article:
```
@software{andre_pedersen_2023_8224208,
author = {André Pedersen},
title = {andreped/breast-cancer-stats: v0.1.0},
month = aug,
year = 2023,
publisher = {Zenodo},
version = {v0.1.0},
doi = {10.5281/zenodo.8224207},
url = {https://doi.org/10.5281/zenodo.8224207}
}
```