Difference between revisions of "Informatics"
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We are building the following database and software components for this project. | We are building the following database and software components for this project. | ||
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| + | ===Phenex curation tool=== | ||
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| + | ===Data services built on OBD=== | ||
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| + | ===Phenoscape web UI=== | ||
* An editor to create, maintain, and manage the taxonomy of Ostariophysi. We will focus on a reference taxonomy derived from the [http://www.calacademy.org/RESEARCH/ichthyology/catalog/fishcatsearch.html Catalog of Fishes].<br/>A taxonomy is a hypothesis about the phylogeny of clades of organisms, and as such we need to allow ultimately for different taxonomies that a user can choose from. | * An editor to create, maintain, and manage the taxonomy of Ostariophysi. We will focus on a reference taxonomy derived from the [http://www.calacademy.org/RESEARCH/ichthyology/catalog/fishcatsearch.html Catalog of Fishes].<br/>A taxonomy is a hypothesis about the phylogeny of clades of organisms, and as such we need to allow ultimately for different taxonomies that a user can choose from. | ||
Revision as of 15:59, 5 November 2008
Contents
Phenoscape Software Components
We are building the following database and software components for this project.
Phenex curation tool
Data services built on OBD
Phenoscape web UI
- An editor to create, maintain, and manage the taxonomy of Ostariophysi. We will focus on a reference taxonomy derived from the Catalog of Fishes.
A taxonomy is a hypothesis about the phylogeny of clades of organisms, and as such we need to allow ultimately for different taxonomies that a user can choose from. - An editor to create, maintain, and manage the anatomical ontology for Ostariophysi (TAO).
- An editor to create, maintain, and manage phenotype annotations in EQ syntax ("EQ Editor"). This editor needs to tightly integrate with the character annotation workflow that morphologists collaborating in the project will follow.
- A database and web-application to store the taxonomies, ontologies, and phenotype data. The web-application will allow scientists to browse and query the ontologies as well as the phenotype data.
Initially, the query capabilities will concentrate on implementing a select set of "use-cases", research questions that show the utility of the approach. Ultimately, we will build interfaces that allow researchers to ask open-ended questions of the data.
All software and database developments will be made freely available as open-source software, and we will make use of existing open-source projects as much as possible. For example, the ontology editor is being built on top of OBO-Edit, and the EQ Editor will be based on, or synergize with, Phenote.
