https://github.com/cnag-biomedical-informatics/clarid-tools
Science Score: 26.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
○DOI references
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○Academic publication links
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○Academic email domains
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○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (8.1%) to scientific vocabulary
Repository
Basic Info
- Host: GitHub
- Owner: CNAG-Biomedical-Informatics
- Language: Perl
- Default Branch: main
- Size: 55 MB
Statistics
- Stars: 1
- Watchers: 0
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
ClarID: A Human-Readable and Compact Identifier Specification for Biomedical Metadata Integration
📘 Documentation: https://cnag-biomedical-informatics.github.io/clarid-tools
📓 Google Colab tutorial: https://colab.research.google.com/drive/1smS42yzL7qYV1kCz34baTWLRr_AAap-r
🗂️ Use Cases I & II GDC Data: https://github.com/CNAG-Biomedical-Informatics/clarid-tools/tree/main/nb/data
📦 CPAN Distribution: https://metacpan.org/pod/ClarID::Tools
🐳 Docker Hub Image: https://hub.docker.com/r/manuelrueda/clarid-tools/tags
ClarID-Tools
📝 Description
ClarID-Tools is a flexible, schema-driven toolkit for generating and parsing structured identifiers for subject and biosample data. The objective is to standardize how subject and biosample metadata are encoded into compact, informative IDs for downstream integration and tracking.
🔬 Key Features
- 🧬 Biosample and Subject ID generation from structured metadata
- 🩺 Support for clinical and experimental metadata, including species, tissue, assay, condition, and more
- 📄 Human-readable and stub-formatted modes for compact or verbose identifiers
- 🧪 Bulk and single-record encoding/decoding
- ✅ Schema validation using JSON Schema and YAML codebooks
- 📦 Command-line interface
🚀 Getting Started
🛠️ Installation
We offer two modes of installation:
📘 Example Usage
Use Cases:
🧠 Citation
If you use ClarID-Tools in your work, please cite:
Manuel Rueda and Ivo G. Gut (2025). ClarID: A Human-Readable and Compact Identifier Specification for Biomedical Metadata Integration. Submitted.
👤 Author
Written by Manuel Rueda, PhD. Info about CNAG can be found at https://www.cnag.eu.
📄 License
ClarID-Tools is released under the Artistic License. See the LICENSE file for details.
Owner
- Name: CNAG Biomedical Informatics
- Login: CNAG-Biomedical-Informatics
- Kind: organization
- Location: Spain
- Repositories: 1
- Profile: https://github.com/CNAG-Biomedical-Informatics
GitHub Events
Total
- Watch event: 1
- Delete event: 1
- Push event: 13
- Create event: 1
Last Year
- Watch event: 1
- Delete event: 1
- Push event: 13
- Create event: 1
Packages
- Total packages: 1
- Total downloads: unknown
- Total dependent packages: 0
- Total dependent repositories: 0
- Total versions: 3
- Total maintainers: 1
metacpan.org: ClarID-Tools
ClarID: A Human-Readable and Compact Identifier Specification for Biomedical Metadata Integration
- Homepage: https://github.com/CNAG-Biomedical-Informatics/clarid-tools
- License: perl_5
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Latest release: 0.02
published 10 months ago
Rankings
Maintainers (1)
Dependencies
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