Phyloreferencing: Advisory Board Meeting
April 23, 2018
Deliverables, Roadmap, Current Status
Major deliverables
- A specification for phyloreference construction and resolution
- An Ontology of Phyloreferences
- Proof-of-concept application for finding, resolving, and validating phyloreferences on a given tree
- Web application demonstrating large-scale biodiversity data integration using phyloreferencing
Phyloreference specification
- Primary goals of this document:
- Describe computational properties a phyloreference MUST, SHOULD, and MAY have.
- Defines a data model and its semantics for phyloreferences.
- Recommends ontology design patterns (to achieve these properties in OWL).
- Defines expectations for specifier matching.
- Currently in draft, in active development: https://github.com/phyloref/specification
Ontology product 1: Phyloreferencing Ontology
- Properties, classes, etc needed to express phyloreferences in OWL
- Development driven by the Phyloref Specification
Ontology product 2:
Ontology of Phyloreferences
- Published and peer-reviewed clade definitions expressed as phyloreferences in OWL
- Vetted for following good practices (e.g., promoting concept stability)
- Deemed useful by biologists
- Entries authored and validated through the Phyloreference Curation Tool
- Uses the Phyloreferencing Ontology
- Ensures compliance with specification
Ontology of Phyloreferences: Development plan
- Major initial milestone is publication of all clade definitions from Phylonym volume
- ~300 clades defined, named, and published according to the PhyloCode
- Curation off of RegNum
- Paper of the ontology to be published in close proximity to appearance of Phylonym volume
- Currently in planning stage
- Required tooling, feasibility re: timelines
- Coordinating with Phylonym team
Authoring and using phyloreferences
- Phyloreference Curation Tool
- Authoring phyloreferences
- Finding, resolving, and validating phyloreferences small-scale
- Status: in active development, initial release impending
- Large-scale biodiversity data integration app
- Use case development initiated
- Primary target for engagement with clade-oriented research groups
Milestones for Year 2
- Initial releases of major products:
- Curation tool 1.0
- Specification 1.0
- Phyloreferencing ontology 1.0
- Ontology of Phyloreferences 1.0
- Small-scale PoC app
Milestones for Year 2 (cont'd)
- Pre-release phase milestones:
- Actionable use cases for large-scale PoC app
- Community milestones:
- Engagement with clade-oriented research groups
Milestones for Year 3
- Major software products:
- Phyloreference authoring tool
- Sophisticated specifier matching
- Large-scale biodiversity data integration app
- Community milestones:
- Deep collaboration with select clade-oriented research group(s)
Phyloreferencing: Advisory Board Meeting April 23, 2018 Deliverables, Roadmap, Current Status
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