meds-inspect
Science Score: 77.0%
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 2 DOI reference(s) in README -
✓Academic publication links
Links to: zenodo.org -
✓Committers with academic emails
1 of 2 committers (50.0%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (15.2%) to scientific vocabulary
Repository
Basic Info
- Host: GitHub
- Owner: rvandewater
- License: mit
- Language: Python
- Default Branch: main
- Size: 4.67 MB
Statistics
- Stars: 6
- Watchers: 1
- Forks: 1
- Open Issues: 6
- Releases: 8
Metadata Files
README.md
🕵️ MEDS-Inspect
MEDS (Medical Event Data Standard) is "the simplest possible standard for health AI" (https://medical-event-data-standard.github.io/).
But after building your own MEDS ETL you might be wondering:
- Is my ETL missing data?
- What codes are contained in my dataset?
- How does my data compare to other MEDS datasets?
- What preprocessing steps are still needed in order to train models?
.. and many more questions related to data exploration.
MEDS-Inspect is an interactive data visualization app that supports you in your data quest.
Getting started
bash
pip install MEDS-Inspect
Then start a server with the following:
bash
MEDS_Inspect --port=8060 --file_path="path/to/your/meds/dataset"
This will start a local web app that you can access in your browser. Running this command without a file path will default to the MIMIC-IV Demo data in MEDS
You should also be able to enter an arbitrary filepath from the GUI.
Getting started (development)
Clone repository:
bash
git clone https://github.com/rvandewater/MEDS-Inspect.git
cd MEDS-Inspect
Create environment:
bash
conda create -n "meds-inspect" python=3.12
conda activate meds-inspect
Install requirements:
bash
pip install -r requirements.txt
Launch app:
bash
python src/MEDS_Inspect/__main__.py
This should start a locally hosted web app.
Functionality
You can start the caching directly from the command line. Caching creates the folder .meds-inspect-cache
bash
python MEDS_Inspect_cache path/to/your/favorite/meds/dataset
Impression:
Owner
- Name: Robin van de Water
- Login: rvandewater
- Kind: user
- Location: Berlin
- Company: Hasso Plattner Institute
- Website: https://www.rpvandewater.com/
- Repositories: 1
- Profile: https://github.com/rvandewater
PhD student in Medical Event Prediction at Hasso Plattner Institute in collaboration with the Charité hospital (Berlin)
Citation (CITATION.cff)
cff-version: 1.2.0
message: "If you use this software, please cite it as below."
title: "MEDS-Inspect"
doi: "10.5281/zenodo.14892253"
authors:
- family-names: "van de Water"
given-names: "Robin Philippus"
orcid: "https://orcid.org/0000-0002-2895-4872"
date-released: "2025-02-19"
url: "https://github.com/rvandewater/MEDS-Inspect"
repository-code: "https://github.com/rvandewater/MEDS-Inspect"
license: "MIT"
GitHub Events
Total
- Create event: 10
- Release event: 7
- Issues event: 6
- Watch event: 5
- Delete event: 1
- Public event: 1
- Push event: 50
- Pull request event: 3
- Fork event: 1
Last Year
- Create event: 10
- Release event: 7
- Issues event: 6
- Watch event: 5
- Delete event: 1
- Public event: 1
- Push event: 50
- Pull request event: 3
- Fork event: 1
Committers
Last synced: 9 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| Robin van de Water | r****r@g****m | 75 |
| Robin Philippus van de Water | v****9@l****u | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 6 months ago
All Time
- Total issues: 6
- Total pull requests: 4
- Average time to close issues: 24 days
- Average time to close pull requests: 9 minutes
- Total issue authors: 2
- Total pull request authors: 1
- Average comments per issue: 0.0
- Average comments per pull request: 0.0
- Merged pull requests: 2
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 6
- Pull requests: 4
- Average time to close issues: 24 days
- Average time to close pull requests: 9 minutes
- Issue authors: 2
- Pull request authors: 1
- Average comments per issue: 0.0
- Average comments per pull request: 0.0
- Merged pull requests: 2
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- rvandewater (5)
- mmcdermott (1)
Pull Request Authors
- rvandewater (4)
Top Labels
Issue Labels
Pull Request Labels
Dependencies
- dash ==2.18.2
- polars ==1.19.0