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Metrics

Number of classes:	3328
Number of individuals:	0
Number of properties:	12
Maximum depth:	8
Maximum number of children:	1109
Average number of children:	6
Classes with a single child:	166
Classes with more than 25 children:	14
Classes with no definition:	1

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Details

Acronym	EDAM
Visibility	Public
BioPortal PURL	http://purl.bioontology.org/ontology/EDAM
Description	EDAM is a comprehensive ontology of well-established, familiar concepts that are prevalent within bioinformatics and computational biology, including types of data and data identifiers, data formats, operations and topics. EDAM is a simply-structured ontology - essentially a set of concepts with preferred terms and synonyms, definitions, and some additional information - organised into a simple and intuitive hierarchy for convenient use by information curators, software developers and end-users. EDAM is suitable for large-scale semantic annotations and categorization of diverse bioinformatics resources. EDAM is also suitable for diverse application including for example within workbenches and workflow-management systems, software distributions, and resource registries.
Status	Production
Format	OWL
Contact	Matúš Kalaš, matus.kalas@uib.no Jon Ison, jison@cbs.dtu.dk EDAM developers, edam-dev@elixir-dk.org Hervé Ménager, hmenager@pasteur.fr Veit Schwämmle, veits@bmb.sdu.dk
Home Page	http://edamontology.org
Publications Page	http://doi.org/10.1093/bioinformatics/btt113
Documentation Page	https://edamontologydocs.readthedocs.io
Categories	Biomedical Resources, Genomic and Proteomic, Other, Vocabularies
Groups

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Submissions

Submission	Release Date	Upload Date	Downloads
1.20 (Parsed, Indexed, Metrics, Annotator)	12/31/2017	12/15/2017	OWL \| CSV \| RDF/XML \| Diff
1.19 (Archived)	10/31/2017	10/30/2017	OWL \| Diff
1.18 (Archived)	07/04/2017	07/06/2017	OWL \| Diff
1.17 (Archived)	04/27/2017	04/28/2017	OWL \| Diff
1.16 (Archived)	10/31/2016	11/01/2016	OWL \| Diff
1.15 (Archived)	05/16/2016	05/16/2016	OWL \| Diff
1.14 (Archived)	02/26/2016	02/26/2016	OWL \| Diff
1.13 (Archived)	02/09/2016	02/08/2016	OWL \| Diff
1.12 (Archived)	12/18/2015	01/06/2016	OWL \| Diff
1.11 (Archived)	07/09/2015	07/09/2015	OWL \| Diff
1.10 (Archived)	07/03/2015	07/03/2015	OWL \| Diff
1.10 (Archived)	07/03/2015	07/03/2015	OWL \| Diff
1.9 (Archived)	02/02/2015	02/02/2015	OWL \| Diff
1.8 (Archived)	12/16/2014	12/16/2014	OWL \| Diff
1.7 (Archived)	12/08/2014	12/08/2014	OWL \| Diff
1.6 (Archived)	11/18/2014	11/18/2014	OWL \| Diff
1.5 (Archived)	11/14/2014	11/14/2014	OWL \| Diff
1.4 (Archived)	10/06/2014	09/26/2014	OWL \| Diff
1.3 (Archived)	02/20/2014	02/18/2014	OWL \| Diff
1.2 (Archived)	12/14/2012	12/14/2012	OWL \| Diff
1.1 (Archived)	07/05/2012	12/10/2012	OBO \| Diff
1 (Archived)	01/13/2012	01/20/2012	OBO
Beta13 (Archived)	12/05/2011	12/05/2011	OBO
beta12 (Archived)	06/17/2011	06/17/2011	OBO
beta11 (Archived)	01/22/2011	01/22/2011	OBO
beta10 (Archived)	07/10/2010	12/01/2010	OBO
beta09 (Archived)	07/10/2010	10/07/2010	OBO
beta08 (Archived)	05/28/2010	08/18/2010	OBO
beta07 (Archived)	05/28/2010	05/28/2010	OBO
beta05 (Archived)	06/11/2010	05/14/2010	OBO
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Biomedical Topics Ontology

Submission	Release Date	Upload Date	Downloads
1.4 (Parsed, Indexed, Metrics, Annotator)	10/06/2014	10/06/2014	OWL \| CSV \| RDF/XML \| Diff
1.4 (Archived)	10/06/2014	10/06/2014	OWL \| Diff
1.4 (Archived)	10/06/2014	10/06/2014	OWL \| Diff
unknown (Archived)	09/26/2014	09/26/2014	OWL \| Diff
unknown (Archived)	09/26/2014	09/26/2014	OWL

EDAM Topics Subset

Submission	Release Date	Upload Date	Downloads
1.4 (Parsed, Indexed, Metrics, Annotator)	10/06/2014	10/06/2014	OWL \| CSV \| RDF/XML

Projects Using This Ontology Create new project

Project	Description	People	Institution
Bio.Tools	Bio.Tools is an open community-curated registry of... Bio.Tools is an open community-curated registry of bioinformatics tools and data resources. It is developed and maintained within the ELIXIR Europe project, in collaboration with the global bioinformatics community.	registry-core@elixir-dk.org registry-core@elixir-dk.org	ELIXIR-EXCELERATE WP1, ELIXIR Denmark, ELIXIR France, ELIXIR Norway, ELIXIR Estonia, ELIXIR Czechia, Debian Med community, SEQwiki community, and other communities
BioXSD	BioXSD defines exchange formats of basic bioinformatics types... BioXSD defines exchange formats of basic bioinformatics types of data. It is a rich, but not too complicated XML-Schema-based format for biopolymer sequences, feature records, alignments, references to resources, and identifiers. Semantics of BioXSD type definitions is given via SAWSDL annotation with EDAM, RDFS, and DublinCore. In addition, BioXSD supports rich annotation of data by any public ontology concepts.	Matus Kalas, Edita Karosiene, Pal Puntervoll, Sveinung... Matus Kalas, Edita Karosiene, Pal Puntervoll, Sveinung Gundersen, Jon Ison, Christophe Blanchet, Kristoffer Rapacki, Inge Jonassen ...	University of Bergen, Danish Technical University, CNRS, EBI ...
Common Workflow Language	The Common Workflow language is a multi-vendor working group... The Common Workflow language is a multi-vendor working group consisting of various organizations and individuals that have an interest in portability of data analysis workflows. Our goal is to create specifications that enable data scientists to describe analysis tools and workflows that are powerful, easy to use, portable, and support reproducibility.
Computational Biology Institute of Montpellier	Modeling, processing and analysis of large scale data in biology, health, agronomy and environment Modeling, processing and analysis of large scale data in biology, health, agronomy and environment	Pierre Larmande (pierre.larmande@ird.fr) Pierre Larmande (pierre.larmande@ird.fr)	University of Montpellier - LIRMM - CNRS
EMBOSS	The European Molecular Biology Open Software Suite (EMBOSS) is... The European Molecular Biology Open Software Suite (EMBOSS) is a well established, high quality package of open source software tools for molecular biology.	Peter Rice, Alan Bleasby, Jon Ison, Mahmut Uludag Peter Rice, Alan Bleasby, Jon Ison, Mahmut Uludag	EMBL-EBI
eSysbio	eSysbio is a project for developing an online workbench for... eSysbio is a project for developing an online workbench for collaborative computational biology research. It provides a secure Web-based workspace where researchers can analyse and share their data. It is available in pre-alpha version.The aims of eSysbio are:1. To enable efficient interdisciplinary life science research2. To ease analysis of complex biological data3. To allow efficient use of public data and analysis tools4. To automatically document in silico experiments for reproducible science For the analyses of their data, users of eSysbio can use any external tools that have an interoperable SOAP Web service interface. In addition, users can use their custom R scripts, or those shared with other users. It allows complex analyses by composing Web services and R scripts into custom workflows.eSysbio focusses on making collaborations smooth: the strong side of eSysbio is the functionality for sharing data, tools, script, and workflows within custom groups of users.	Kidane Tekle, Hakon Sagehaug, Matus Kalas, Siv Midtun Hollup,... Kidane Tekle, Hakon Sagehaug, Matus Kalas, Siv Midtun Hollup, Michael Dondrup, Anne-Kristin Stavrum, Pawel Sztromwasser, Armin Topfer, Kjell Petersen, Inge Jonassen, Pal Puntervoll	University of Bergen
SEQwiki	The SEQanswers wiki (SEQwiki) is a wiki database that provides... The SEQanswers wiki (SEQwiki) is a wiki database that provides an extensive catalogue of tools, technologies and tutorials for high-throughput sequencing (HTS), including information about HTS service providers.	Jing-Woei Li1, Keith Robison, Marcel Martin, Andreas Sjdin,... Jing-Woei Li1, Keith Robison, Marcel Martin, Andreas Sjdin, Bjrn Usadel, Matthew Young, Eric C. Olivares, and Dan M. Bolser	NA

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