View source for Taxonomy ontology

The taxonomy ontology will be based on the Catalog of Fishes.

==Resources==

Here are some useful resources for creating the taxonomy ontology:

* Chris Mungall's [http://www.berkeleybop.org/ontologies/obo-all/ncbi_taxonomy/ncbi_taxonomy.obo NCBI Taxonomy in OBO format] - ''this file is huge!''
* Catalog of Fishes database [[cof_schema|schema documentation]].
* [http://www.geneontology.org/GO.format.obo-1_2.shtml OBO Flat File Format Specification]
* [http://www.obofoundry.org/wiki/index.php/Identifiers OBO Identifier Lifecycle]

==Taxonomy ontology structure==

The NCBI taxonomy ontology has some special terms and relations which are probably relevant to the fish taxonomy ontology.  One of these is the "has_rank" typedef, which is used as a property value on the taxon terms:

<pre>
[Typedef]
id: has_rank
name: has_rank
def: "A metadata relation between a class and its taxonomic rank (eg species, family)" []
comment: This is an abstract class for use with the NCBI taxonomy to name the depth of the node within the tree. The link between the node term and th
e rank is only visible if you are using an obo 1.3 aware browser/editor; otherwise this can be ignored
is_metadata_tag: true
</pre>