Version 1.2

This version features many improvements to both schema and framework, including:

Schema additions:

• Added a unit of measurement to various schema elements
• Created a placeholder schema for PALGA protocol for Molecular testing
• Added ROR data that may be used as an alternative to Institutes lookup
• Started mapping Investigation to linkedISA using SKOS terms
• Added new element to report analyses other than genomics

Schema updates:

• Reworked recontacting options for Allow recontacting in Individual consent
• Updated IRIs for storage conditions to alternative location for resolvability
• Fixed the IRIs to ATC drug codes to be resolvable
• Extensive rework of sex and gender information, including new elements and lookups
• Changed Average read depth to Median read depth
• Consent form creator now uses DC:creator as predicate

Framework additions:

• Ability to add SKOS matching terms to the schema to expand ontology mappings
• Support for schema extensions that are parellel to the main schema
• Prototype tools to compare and intersect schemas to check interoperability
• Ability to add units of measurement to schema elements
• Added helper tool to check the resolvability of IRIs in the schema
• Added documentation for the YAML format used to express the schema
• Ability to define relationships between schema modules
• Renamed resources from RDF to XML to fix MIME type issues

Version 1.1

This version features an improved ART-DECOR XML with the 'private' and 'experimental' flags set to FALSE so that it can be properly published. Two other issues were fixed: an NGS kit was added, and a file name discrepancy (material type -> biospecimen type) was solved.

Version 1.0

This version features the new MOLGENIS-EMX2 generator and significant updates for the schema including better element descriptions, lookup value typing and replacing non-resolvable terms with proper ontologies. The Docker installation is now fully automated and MOLGENIS webapp styling looks nicer. The readme and release SOP have received updates, a number of bugs were fixed, and the project received many other small improvements not listed here.

Version 0.3

Version 0.3 of the FAIR Genomes semantic metadata model, 2021-04-23. This version encompasses many technical, lookup and model updates, new model metadata, and new output types. The application ontology is restructured and now uses the https://w3id.org/fair-genomes namespace to link RDF-XML fragments to describe newly introduced terms, and can be browsed on a LODE page.

Version 0.2

Version 0.2 of the FAIR Genomes semantic metadata model, 2021-01-13. This version addresses nearly all issues reported during 2020 development of the model prototype. It is the first official release and uses a formal YAML representation that can be transformed into other technical formats that are used in e.g. database creation. This concept has been tested in a MOLGENIS 8.3 setting and the EMX output is 100% compliant, meaning that the output setup.sh script runs without intervention to create a fully functioning database system as intended. The first prototype released as a public demo version was unofficially tagged as version 0.1 (at https://github.com/fairgenomes/information/tree/master/fairgenomes_molgenis_app), hence this is tagged as version 0.2.