edam-ontology
Versioned, Python packaged EDAM ontology (http://edamontology.org/) data.
Decision gist · record as of 2026-08-14
Yes, if you work with bioinformatics tools or workflows that need to reference EDAM terms. The package has no dependencies, installs easily, and is actively maintained. If you don't need EDAM vocabulary, there's no reason to install it.AI-flagged interpretation of the facts on this page — verify before relying
Before you install
- Low install friction with no runtime dependencies.
- Actively maintained with recent commits and stable Python 3.9+ support across modern versions.
License · maintenance · safety
MIT (permissive) — MIT license permits unrestricted use, modification, and distribution in commercial and private projects with minimal obligations.
last release 2025-10-30 (288 days) · last repo commit 2026-07-20 · 3 stars
0 known vulnerabilities (OSV.dev, 2026-08-14) · 112,134 downloads/mo, #12,380 on PyPI
Alternatives
Verify before relying
pip install edam-ontology
import edam_ontology
# Access EDAM ontology data as packaged Python objects- How the ontology data is exposed in the Python API (structure, access patterns, query methods)
- Whether the package includes tools for searching or filtering EDAM terms beyond raw data access
- Performance characteristics when working with the full ontology dataset
What it is and what it does
This package bundles the EDAM ontology—a standardized vocabulary of bioinformatics operations, data types, identifiers, topics, and formats—as a Python distribution. EDAM is widely used in bioinformatics tools and workflows to annotate and describe computational tasks and data. The package exists primarily to let Python projects, especially Galaxy packages, access this ontology without requiring non-Python dependencies or external network calls.
The package is a direct Python port of the EDAM ontology maintained at edamontology.org. It carries no runtime dependencies, installs cleanly on Python 3.9 and later, and is actively maintained. The underlying ontology is published under CC BY-SA 4.0 and described in a peer-reviewed article (Ison et al., 2013).
Use it for
- Annotate bioinformatics workflows or tool descriptions with standardized EDAM operation and data type terms
- Build Galaxy tool wrappers that reference EDAM vocabulary without external ontology lookups
- Validate or map bioinformatics tool inputs and outputs against a shared ontology standard
- Generate documentation or metadata for bioinformatics software using EDAM classifications
Worth the install?
AI-flagged interpretation of the facts on this page. Verify before relying on it.
Yes, if you work with bioinformatics tools or workflows that need to reference EDAM terms.
The package has no dependencies, installs easily, and is actively maintained. If you don't need EDAM vocabulary, there's no reason to install it.
Install
edam-ontology on PyPI
Before you install
Low install friction with no runtime dependencies. Actively maintained with recent commits and stable Python 3.9+ support across modern versions.
License in practice
MIT license permits unrestricted use, modification, and distribution in commercial and private projects with minimal obligations.
Quickstart
pip install edam-ontology
import edam_ontology
# Access EDAM ontology data as packaged Python objectsVerify before relying
- How the ontology data is exposed in the Python API (structure, access patterns, query methods)
- Whether the package includes tools for searching or filtering EDAM terms beyond raw data access
- Performance characteristics when working with the full ontology dataset
Package facts
| License | MIT permissive |
| Python support | Supports the current Python release >=3.9 |
| Install friction | Low. Pure-Python wheel |
| Runtime dependencies | None |
| Maintenance | Actively maintained 288 days since the last release |
| Last repo commit | |
| First released | |
| Downloads | 112,134 / month, #12,380 on PyPI 30-day window, as of 2026-08-14 |
| Known vulnerabilities | None known OSV.dev, checked 2026-08-14 |
| Classifiers | Development Status :: 5 - Production/StableEnvironment :: ConsoleIntended Audience :: DevelopersNatural Language :: EnglishOperating System :: POSIXProgramming Language :: Python :: 3Programming Language :: Python :: 3.10Programming Language :: Python :: 3.11Programming Language :: Python :: 3.12Programming Language :: Python :: 3.13Programming Language :: Python :: 3.14Programming Language :: Python :: 3.9Topic :: Software DevelopmentTopic :: Software Development :: Code GeneratorsTopic :: Software Development :: Testing |
Evidence: edam_ontology-1.25.3-py3-none-any.whl
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