Feature Annotation Location Description Ontology | Agrisemantics Map of Data Standards

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FALDO is the Feature Annotation Location Description Ontology. It is a simple ontology to describe sequence feature positions and regions as found in GFF3, DBBJ, EMBL, GenBank files, UniProt, and many other bioinformatics resources. The aim of this ontology is to describe the position of a sequence region or a feature. It does not aim to describe features or regions itself, but instead depends on resources such as the Sequence Ontology or the UniProt core ontolgy.

Form

Core information

URL(s):

https://github.com/JervenBolleman/FALDO

Type of standard:

Ontology

Additional information

Acronym:

FALDO

Contact email:

jerven.bolleman@isb-sib.ch

License(s):

CC0 Public Domain Dedication

Technical information

Format of the data standard:

CSV, OWL/XML, RDF/XML

Namespace:

http://biohackathon.org/resource/faldo

Download / dump:

http://data.agroportal.lirmm.fr/ontologies/FALDO/submissions/1/download?apikey=1...

Link to machine-readable description:

https://raw.githubusercontent.com/JervenBolleman/FALDO/master/faldo.ttl

Relations

Aligned / mapped to (link to vocabulary in the map):

GENO Ontology

RDF vocabulary

RDF "language":

OWL

Number of classes:

Number of properties:

VEST / AgroPortal integration

Original source:

AgroPortal

Agroportal URI:

http://data.agroportal.lirmm.fr/ontologies/FALDO

Agroportal Web page:

http://agroportal.lirmm.fr/ontologies/FALDO

Assessment

An overview of criteria used for the assessment can be found here.

Total score:

2.14

assessment tabs

Fitness / adoption

Complete:

Fairly complete but needs complementary vocabularies

Authoritative:

Not clear - N/A

Largely compatible:

Yes

Known:

Yes, moderately

Used in software:

Yes, in a few tools

Used in datasets:

Not clear - N/A

Discoverable:

Yes

Regulatory:

Not clear - N/A

Endorsed:

Yes, moderately

Long-term, sustainable:

Not clear - N/A

Participatory, collaborative:

Not clear - N/A

Maintained:

Not clear - N/A

Scores

Avg fitness:

2.33

Avg adoption:

1.67

Usability / openness

Available on the web:

Yes

Versatile:

Yes, 2-3 similar formats

Served by APIs:

Yes, to get web- or user- friendly results

Yes, to lookup terms / concepts using several parameters

Yes, to automatically annotate text or data

Yes, to perform cross-walks between vocabularies

Manageable:

Yes, on specialized vocabulary management platform

Documented:

Not clear - N/A

Supported:

Not clear - N/A

Testable:

Not clear - N/A

Machine-readable:

Yes

Meaningful:

Yes

Annotated:

Not clear - N/A

Referenceable:

Yes

Linked:

Yes

Clearly licensed:

Not clear - N/A

Openly licensed:

Not clear - N/A

Scores

Avg usability:

2.43

Avg openness:

2.14

Notes on assessment:

First technical assessment (usability / openness) made by: FAO.

URI: https://vest.agrisemantics.org/node/17597

RDF

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