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BONSAI: A framework for processing and analysing Electronic Health Records (EHR) data using transformer-based models

BONSAI: A framework for processing and analysing Electronic Health Records (EHR) data using transformer-based models - Published in JOSS (2025)

https://github.com/fga-diku/ehr

Science Score: 87.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ○
    codemeta.json file
  • ○
    .zenodo.json file
  • ✓
    DOI references
    Found 1 DOI reference(s) in JOSS metadata
  • ○
    Academic links in README
  • ○
    Academic email domains
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    Institutional organization owner
  • ✓
    JOSS paper metadata
    Published in Journal of Open Source Software
Last synced: 8 months ago · JSON representation

JOSS Publication

BONSAI: A framework for processing and analysing Electronic Health Records (EHR) data using transformer-based models
Published
October 20, 2025
DOI
Volume 10, Issue 114, Page 8869
Authors
Maria Elkjær Montgomery ORCID
University of Copenhagen, Denmark
Kiril Klein ORCID
University of Copenhagen, Denmark
Mikkel Odgaard ORCID
University of Copenhagen, Denmark
Stephan Sloth Lorenzen ORCID
University of Copenhagen, Denmark
Zahra Sobhaninia
University of Copenhagen, Denmark
Editor
Evan Spotte-Smith ORCID
Tags
EHR BERT healthcare machine learning
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Issues and Pull Requests

Last synced: 9 months ago

All Time
  • Total issues: 154
  • Total pull requests: 111
  • Average time to close issues: 17 days
  • Average time to close pull requests: 3 days
  • Total issue authors: 5
  • Total pull request authors: 7
  • Average comments per issue: 0.32
  • Average comments per pull request: 0.59
  • Merged pull requests: 60
  • Bot issues: 0
  • Bot pull requests: 2
Past Year
  • Issues: 144
  • Pull requests: 90
  • Average time to close issues: 17 days
  • Average time to close pull requests: 3 days
  • Issue authors: 5
  • Pull request authors: 6
  • Average comments per issue: 0.33
  • Average comments per pull request: 0.68
  • Merged pull requests: 53
  • Bot issues: 0
  • Bot pull requests: 2
View more stats
Top Authors
Issue Authors
  • kirilklein (127)
  • mikkelfo (18)
  • Montgomeryyyy (7)
  • ZahraSobhaninia (1)
  • StephanLorenzen (1)
Pull Request Authors
  • kirilklein (58)
  • Montgomeryyyy (29)
  • StephanLorenzen (10)
  • mikkelfo (10)
  • coderabbitai[bot] (2)
  • Sllambias (1)
  • meghana-0211 (1)
Top Labels
Issue Labels
enhancement (30) 🌟feature (26) 🐞minor-bug (16) 🔴bug (15) effort: small (15) 🎓good first issue (14) ✨ minor improvement (13) effort: medium (9) 🧪 tests (8) 📖documentation (8) priority: medium (7) good first issue (7) ❓question (6) 🚨priority: high (6) bug (6) high priority (5) 🙋help wanted (5) ♻️refactor (4) 🚨high priority (4) 🔍investigation (4) Improvement (4) ⚡optimization (3) 🏗️infra (2) help wanted (2) ⏳future-issue (2) priority: low (2) status: blocked (1) status: in progress (1) effort: large (1)
Pull Request Labels
Run big test (3) enhancement (2) 🐞minor-bug (1) 🙋help wanted (1)