EDAMontology
EDAMontology is an umbrella organisation for the development and maintenance of the EDAM ontology and related tools and works.
Pinned Repositories
edam-bioimaging
Ontology of bioimage informatics operations, topics, types of data, and data formats. EDAM-Bioimaging is an extension of the EDAM ontology (edamontology.org) dedicated to bioimaging data analysis, and developed in an open collaboration including partners from NEUBIAS (neubias.org), COMULIS (comulis.eu), and ELIXIR (elixir-europe.org)..
edam-browser
Stand-alone, lightweight, and fast JavaScript browser for EDAM and other ontologies
edam-ontology.py
edam-popovers
A Firefox & Chrome extension that displays detailed information about EDAM concepts
edam2json
utility to export EDAM to various sorts of JSON formats (JSON-LD, bio.tools JSON)
edam2json-js
Javascript library to convert EDAM to JSON/JSON-LD
edammap
A tool for mapping various text input to EDAM ontology concepts
edamontology
EDAM is a domain ontology of data analysis and data management in bio- and other sciences, and science-based applications. It comprises concepts related to analysis, modelling, optimisation, and data life cycle. Targetting usability by diverse users, EDAM's structure is relatively simple, divided into 4 sections: Topic, Operation, Data, and Format.
edamontologyDocs
Documentation for EDAM.
pubfetcher
A Java command-line tool and library to download and store publications with metadata by combining content from various online resources
EDAMontology's Repositories
edamontology/edamontology
EDAM is a domain ontology of data analysis and data management in bio- and other sciences, and science-based applications. It comprises concepts related to analysis, modelling, optimisation, and data life cycle. Targetting usability by diverse users, EDAM's structure is relatively simple, divided into 4 sections: Topic, Operation, Data, and Format.
edamontology/edam-browser
Stand-alone, lightweight, and fast JavaScript browser for EDAM and other ontologies
edamontology/edam-bioimaging
Ontology of bioimage informatics operations, topics, types of data, and data formats. EDAM-Bioimaging is an extension of the EDAM ontology (edamontology.org) dedicated to bioimaging data analysis, and developed in an open collaboration including partners from NEUBIAS (neubias.org), COMULIS (comulis.eu), and ELIXIR (elixir-europe.org)..
edamontology/edammap
A tool for mapping various text input to EDAM ontology concepts
edamontology/pubfetcher
A Java command-line tool and library to download and store publications with metadata by combining content from various online resources
edamontology/edam-popovers
A Firefox & Chrome extension that displays detailed information about EDAM concepts
edamontology/edam2json-js
Javascript library to convert EDAM to JSON/JSON-LD
edamontology/edam-ontology.py
edamontology/edam2json
utility to export EDAM to various sorts of JSON formats (JSON-LD, bio.tools JSON)
edamontology/caseologue
Validation tools for the EDAM ontology
edamontology/edam-sandbox
Miscellaneous files for test purposes
edamontology/edamontologyDocs
Documentation for EDAM.
edamontology/benten
A language server for Common Workflow Language
edamontology/debtag2edam2debtags
The EDAM ontology for bioinformatics tools and services should be come compatible with the Debtags and vice versa. This project starts out with adding EDAM references to the debtags volcabulary export file.
edamontology/edam-fu
EDAM ontology formatting utility
edamontology/edam-geo
Extension of EDAM towards geo- and other sciences, including Earth and planetary sciences, climate science, ecology, public health, environmental monitoring, emergency management, etc. Everyone welcome to view & comment at https://webprotege.stanford.edu/#projects/69591619-4eda-4f03-9e7f-65b213038fe1/edit/Classes (free registration needed).
edamontology/edam-geo-test.bak
Extension of the EDAM ontology for geo-related concepts, including areas of Earth and planetary sciences, climate research, ecology, public health, etc.
edamontology/edam-geo-wp-dump
EDAM ("Geo"), raw download from WebProtégé
edamontology/edam-playground
Slides, swings, and sandbox ontology
edamontology/edam-stub-experiment
edamontology/edamontology.github.io
obsolete repo for the EDAM ontology website (redirects to edamontology.org)
edamontology/edamontology.org
Static EDAM website
edamontology/edamxpathvalidator
Verification script for the EDAM ontology
edamontology/jupyterlab-test
Testing OWL tools in JupyterLab (in usegalaxy.eu)
edamontology/logoi
Various suggestions of logoi for EDAM and related tools