prob-epi
Course materials of "Bayesian Modelling and Probabilistic Programming with Numpyro, and Deep Generative Surrogates for Epidemiology"
Science Score: 67.0%
This score indicates how likely this project is to be science-related based on various indicators:
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✓CITATION.cff file
Found CITATION.cff file -
✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
✓DOI references
Found 1 DOI reference(s) in README -
○Academic publication links
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✓Committers with academic emails
2 of 17 committers (11.8%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (10.3%) to scientific vocabulary
Keywords
Repository
Course materials of "Bayesian Modelling and Probabilistic Programming with Numpyro, and Deep Generative Surrogates for Epidemiology"
Basic Info
- Host: GitHub
- Owner: elizavetasemenova
- License: mit
- Language: Jupyter Notebook
- Default Branch: main
- Homepage: https://elizavetasemenova.github.io/prob-epi
- Size: 24.6 MB
Statistics
- Stars: 64
- Watchers: 6
- Forks: 24
- Open Issues: 5
- Releases: 1
Topics
Metadata Files
README.md
https://elizavetasemenova.github.io/prob-epi
Giving feedback
To correct typos, please make pull requests on GitHub. If these notes ever get published, I will list your name in Acknowledgements.
For more substantial suggestions about the course content, such as desired topics, please use issues on GitHub or email them to
elizaveta [dot] p [dot] [insert my surname] [at] gmail [dot] com.If you enjoyed the content and / or learnt from it, please leave a 'star' to the book's GitHub repository.
If you are creating a written document (a paper, report, book chapter) where you use what you've learnt here, please cite
@software{Semenova_Bayesian_Modelling_and_2024,
author = {Semenova, Elizaveta},
doi = {10.5281/zenodo.11550659},
month = jun,
title = {{Bayesian Modelling and Probabilistic Programming with Numpyro, and Deep Generative Surrogates for Epidemiology.}},
url = {https://github.com/elizavetasemenova/prob-epi},
version = {v1.0.0},
year = {2024}
}
Conda environment
To run the code examples from the course, the recommended Conda environemnt can be created as follows:
conda create -n aims python=3.9
conda activate aims
conda install -c conda-forge jupyter-book
conda install conda-forge::numpyro
conda install conda-forge::jax
pip install -U jax
pip install flax
conda install conda-forge::matplotlib
conda install numpy
conda install conda-forge::ghp-import
pip install sphinxcontrib-tikz
conda install conda-forge::geopandas
conda install conda-forge::arviz
conda install anaconda::seaborn
pip install pyppeteer
Owner
- Name: Elizaveta Semenova
- Login: elizavetasemenova
- Kind: user
- Location: Oxford, UK
- Website: https://elizaveta-semenova.com/
- Twitter: liza_p_semenova
- Repositories: 44
- Profile: https://github.com/elizavetasemenova
Bayesian inference, spatial statistics, deep generative models, epidemiology
Citation (CITATION.cff)
cff-version: 1.2.0 message: "If you use this software, please cite it as below." authors: - family-names: "Semenova" given-names: "Elizaveta" orcid: "https://orcid.org/0000-0002-8271-2575" title: "Bayesian Modelling and Probabilistic Programming with Numpyro, and Deep Generative Surrogates for Epidemiology." version: v1.0.0 doi: 10.5281/zenodo.11550659 date-released: 2024-06-19 url: "https://github.com/elizavetasemenova/prob-epi"
GitHub Events
Total
- Issues event: 15
- Watch event: 23
- Issue comment event: 7
- Push event: 55
- Pull request event: 28
- Fork event: 11
Last Year
- Issues event: 15
- Watch event: 23
- Issue comment event: 7
- Push event: 55
- Pull request event: 28
- Fork event: 11
Committers
Last synced: 9 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| Elizaveta Semenova | e****a@g****m | 238 |
| ramaminiaina | m****y@a****a | 9 |
| clemsadand | 1****d | 6 |
| Haingo | m****r@g****m | 6 |
| Josiah K. Kimani | 8****9 | 5 |
| Jean Lucien Randrianantenaina | r****a@g****m | 3 |
| Houngue | 3****c | 3 |
| Benedict O. Ejelonu | 5****z | 2 |
| M@my | 1****a | 2 |
| Ahmed Eldaw | a****3@g****m | 1 |
| Antony M. Gitau | 6****u | 1 |
| Damon Bayer | d****r@g****m | 1 |
| Sam Abbott | c****t@s****k | 1 |
| Vilmo18 | k****n@g****m | 1 |
| Yassir Aladdin | y****r@a****a | 1 |
| athowes | a****s@g****m | 1 |
| joubertdw-ai | j****i@g****m | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 9 months ago
All Time
- Total issues: 11
- Total pull requests: 64
- Average time to close issues: about 9 hours
- Average time to close pull requests: about 10 hours
- Total issue authors: 7
- Total pull request authors: 16
- Average comments per issue: 0.82
- Average comments per pull request: 0.19
- Merged pull requests: 56
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 11
- Pull requests: 23
- Average time to close issues: about 9 hours
- Average time to close pull requests: about 19 hours
- Issue authors: 7
- Pull request authors: 10
- Average comments per issue: 0.82
- Average comments per pull request: 0.39
- Merged pull requests: 19
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- josiahkim29 (4)
- Y-Aladdin (2)
- AhMedDa1 (1)
- athowes (1)
- elizavetasemenova (1)
- Antony-gitau (1)
- koomited (1)
Pull Request Authors
- josiahkim29 (12)
- clemsadand (10)
- iamhaingo (9)
- Fahazavana (8)
- ramaminiaina (7)
- hjisaac (7)
- iramamy (7)
- Bwhiz (4)
- seabbs (2)
- joubertdw-ai (2)
- Vilmo18 (2)
- Antony-gitau (2)
- damonbayer (2)
- arayner-ic (2)
- athowes (2)
Top Labels
Issue Labels
Pull Request Labels
Dependencies
- actions/cache v3 composite
- actions/checkout v3 composite
- actions/deploy-pages v2 composite
- actions/setup-python v4 composite
- actions/upload-pages-artifact v2 composite
- arviz *
- geopandas *
- ghp-import *
- jax *
- jupyter-book *
- matplotlib *
- numpy *
- numpyro *
- pyppeteer *
- seaborn *
- sphinxcontrib-tikz *