Difference between revisions of "EQ shortcuts (temporary)"
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Here are temporary curation shortcuts for creating particular kinds of phenotypes. These can be used until better EQ entry interfaces are available in Phenex. The KB data loader will watch for and correctly interpret each of these. | Here are temporary curation shortcuts for creating particular kinds of phenotypes. These can be used until better EQ entry interfaces are available in Phenex. The KB data loader will watch for and correctly interpret each of these. | ||
| + | |||
| + | ==Complementary phenotypes ("negation")== | ||
| + | Example: "opercle, not round". Create a postcomposition for the quality, choosing a meaningful genus term and using the "not" relation. | ||
| + | * E: opercle | ||
| + | * Q: shape^not(round) | ||
| + | |||
| + | ==Comparative phenotypes (one structure relative to another)== | ||
| + | Example: "supraorbital increased in size relative to frontal". Put the compared to structure in the related entity column. Choose one of the "increased/decreased X" qualities. While these qualities technically compare to "normal", the data loader will replace them with the correct quality. | ||
| + | * E: supraorbital | ||
| + | * Q: increased size | ||
| + | * RE: frontal | ||
| + | |||
| + | ==Locally relative phenotypes== | ||
| + | Example: "opercle size: small, medium, or large". Choose the quality being compared, and place a number in the Count column indicating the proper sort order (1 < 2 < 3). For "small": | ||
| + | * E: opercle | ||
| + | * Q: size | ||
| + | * Count: 1 | ||
[[Category:Curation]] | [[Category:Curation]] | ||
[[Category:EQ Annotation]] | [[Category:EQ Annotation]] | ||
Latest revision as of 02:07, 26 October 2010
Here are temporary curation shortcuts for creating particular kinds of phenotypes. These can be used until better EQ entry interfaces are available in Phenex. The KB data loader will watch for and correctly interpret each of these.
Complementary phenotypes ("negation")
Example: "opercle, not round". Create a postcomposition for the quality, choosing a meaningful genus term and using the "not" relation.
- E: opercle
- Q: shape^not(round)
Comparative phenotypes (one structure relative to another)
Example: "supraorbital increased in size relative to frontal". Put the compared to structure in the related entity column. Choose one of the "increased/decreased X" qualities. While these qualities technically compare to "normal", the data loader will replace them with the correct quality.
- E: supraorbital
- Q: increased size
- RE: frontal
Locally relative phenotypes
Example: "opercle size: small, medium, or large". Choose the quality being compared, and place a number in the Count column indicating the proper sort order (1 < 2 < 3). For "small":
- E: opercle
- Q: size
- Count: 1
