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 3 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 (5.9%) to scientific vocabulary
Keywords
diagnosis
gene
hpo-similarity
matching-algorithm
matchmaker
matchmaking
matchmaking-server
omim
patient-matching
patients
score
similarity-score
variants
Last synced: 6 months ago
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JSON representation
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Repository
A MatchMaker Exchange server
Basic Info
- Host: GitHub
- Owner: Clinical-Genomics
- License: mit
- Language: Python
- Default Branch: main
- Homepage: https://clinical-genomics.github.io/patientMatcher/
- Size: 27.5 MB
Statistics
- Stars: 11
- Watchers: 5
- Forks: 6
- Open Issues: 6
- Releases: 40
Topics
diagnosis
gene
hpo-similarity
matching-algorithm
matchmaker
matchmaking
matchmaking-server
omim
patient-matching
patients
score
similarity-score
variants
Created about 7 years ago
· Last pushed over 1 year ago
Metadata Files
Readme
Changelog
License
Citation
Codeowners
README.md
patientMatcher - a Python and MongoDB - based MatchMaker Exchange server
PatientMatcher is a Python (Flask) and MongoDB - based implementation of a MatchMaker Exchange (MME) server, developed and actively maintained by Clinical Genomics, Science For Life Laboratory in Stockholm. PatientMatcher is designed as a standalone application, but can easily communicate with external applications via REST API. The MME Stockholm node is being implemented in clinical production in collaboration with the Genomic Medicine Center Karolinska at the Karolinska University Hospital.
Info on how to test PatientMatcher or to set up a server containing an app frontend and backend is available on the documentation pages.
Owner
- Name: Clinical Genomics
- Login: Clinical-Genomics
- Kind: organization
- Location: Stockholm, Sweden
- Website: https://clinical-genomics.github.io
- Repositories: 67
- Profile: https://github.com/Clinical-Genomics
Citation (CITATION.cff)
cff-version: 1.2.0 message: "If you use this software, please cite it as below." authors: - family-names: "Rasi" given-names: "Chiara" orcid: "https://orcid.org/0000-0002-7001-3988" - family-names: "Nilsson" given-names: "Daniel" orcid: "https://orcid.org/0000-0001-5831-385X" - family-names: "Magnusson" given-names: "Måns" orcid: "https://orcid.org/0000-0002-0001-1047" - family-names: "Lesko" given-names: "Nicole" orcid: "https://orcid.org/0000-0001-8770-1878" - family-names: "Lagerstedt-Robinson" given-names: "Kristina" orcid: "https://orcid.org/0000-0001-9848-0468" - family-names: "Wedell" given-names: "Anna" orcid: "https://orcid.org/0000-0002-2612-6301" - family-names: "Lindstrand" given-names: "Anna" orcid: "https://orcid.org/0000-0003-0806-5602" - family-names: "Wirta" given-names: "Valtteri" orcid: "https://orcid.org/0000-0003-3811-5439" - family-names: "Stranneheim" given-names: "Henrik" orcid: "https://orcid.org/0000-0002-1831-5735" title: "PatientMatcher: A customizable Python-based open-source tool for matching undiagnosed rare disease patients via the Matchmaker Exchange network" version: 3.2 doi: 10.1002/humu.24358 date-released: 2022-03-07 url: "https://onlinelibrary.wiley.com/doi/10.1002/humu.24358"
GitHub Events
Total
- Create event: 9
- Release event: 2
- Issues event: 14
- Watch event: 1
- Delete event: 7
- Issue comment event: 37
- Push event: 29
- Pull request event: 15
Last Year
- Create event: 9
- Release event: 2
- Issues event: 14
- Watch event: 1
- Delete event: 7
- Issue comment event: 37
- Push event: 29
- Pull request event: 15
Committers
Last synced: almost 3 years ago
All Time
- Total Commits: 633
- Total Committers: 2
- Avg Commits per committer: 316.5
- Development Distribution Score (DDS): 0.032
Top Committers
| Name | Commits | |
|---|---|---|
| northwestwitch | r****a@g****m | 613 |
| Tor Solli-Nowlan | t****n@m****o | 20 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 7 months ago
All Time
- Total issues: 52
- Total pull requests: 73
- Average time to close issues: about 1 month
- Average time to close pull requests: about 14 hours
- Total issue authors: 2
- Total pull request authors: 2
- Average comments per issue: 0.52
- Average comments per pull request: 1.79
- Merged pull requests: 71
- Bot issues: 0
- Bot pull requests: 2
Past Year
- Issues: 1
- Pull requests: 2
- Average time to close issues: N/A
- Average time to close pull requests: about 5 hours
- Issue authors: 1
- Pull request authors: 2
- Average comments per issue: 0.0
- Average comments per pull request: 1.5
- Merged pull requests: 1
- Bot issues: 0
- Bot pull requests: 1
Top Authors
Issue Authors
- northwestwitch (58)
- dnil (1)
Pull Request Authors
- northwestwitch (81)
- dependabot[bot] (3)
Top Labels
Issue Labels
bug (16)
enhancement (11)
easy (1)
Clinical Genomics Solna instance only (1)
Pull Request Labels
dependencies (3)
refactor (1)
Dependencies
requirements-dev.txt
pypi
- Flask-Mail * development
- click * development
- coveralls * development
- mongomock * development
- pytest * development
- pytest-cov * development
- pytest-test-groups * development
- requests * development
requirements.txt
pypi
- Flask *
- Flask-Mail *
- clint *
- coloredlogs *
- enlighten *
- flask-negotiate *
- jsonschema *
- pymongo <4.0
- requests *
- responses *