Difference between revisions of "Metrics Study"
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= Download Metrics Files = | = Download Metrics Files = | ||
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* [[Media:Ontology_metrics.txt.zip|Ontology Metrics]] - metrics for all of the BioPortal ontologies taken on May 5, 2010. | * [[Media:Ontology_metrics.txt.zip|Ontology Metrics]] - metrics for all of the BioPortal ontologies taken on May 5, 2010. | ||
* [[Media:Annotation_metrics.txt.zip|Annotation Metrics]] - metrics for the NCBO Resource Index taken on June 3, 2010. | * [[Media:Annotation_metrics.txt.zip|Annotation Metrics]] - metrics for the NCBO Resource Index taken on June 3, 2010. | ||
= Download Benchmark Ontologies = | = Download Benchmark Ontologies = | ||
| + | These ontologies were generated using the OntoGenerate tool using the given input parameters (randomization seed, no. individuals, depth, span, density). | ||
| + | |||
* Small | * Small | ||
** [[Media:Small_shallow.obo.zip|Small-Shallow]] (7, 1000000, 5, 6, 30) | ** [[Media:Small_shallow.obo.zip|Small-Shallow]] (7, 1000000, 5, 6, 30) | ||
| − | ** [[Media:Small_mid.obo.zip|Small-Mid]] ( | + | ** [[Media:Small_mid.obo.zip|Small-Mid]] (100, 1000000, 10, 4, 40) |
| − | ** [[Media:Small_deep.obo.zip|Small-Deep]] (7, 1000000, | + | ** [[Media:Small_deep.obo.zip|Small-Deep]] (7, 1000000, 20, 2, 60) |
* Medium | * Medium | ||
| − | ** [[Media:Medium_shallow.obo.zip|Medium-Shallow]] | + | ** [[Media:Medium_shallow.obo.zip|Medium-Shallow]] (7, 1000000, 5, 6, 30) |
| − | ** [[Media:Medium_mid.obo.zip|Medium-Mid]] | + | ** [[Media:Medium_mid.obo.zip|Medium-Mid]] (100, 1000000, 10, 4, 60) |
| − | ** [[Media:Medium_deep.obo.zip|Medium-Deep]] | + | ** [[Media:Medium_deep.obo.zip|Medium-Deep]] (7, 1000000, 20, 6, 28) |
* Large | * Large | ||
| − | ** [[Media:Large_shallow.obo.zip|Large-Shallow]] | + | ** [[Media:Large_shallow.obo.zip|Large-Shallow]] (7, 1000000, 5, 11, 60) |
| − | ** [[Media:Large_mid.obo.zip|Large-Mid]] | + | ** [[Media:Large_mid.obo.zip|Large-Mid]] (7, 1000000, 6, 40) |
| − | ** [[Media:Large_deep.obo.zip|Large-Deep]] | + | ** [[Media:Large_deep.obo.zip|Large-Deep]] (7, 1000000, 20, 3, 52) |
Revision as of 15:30, 21 June 2010
Introduction
We performed a metrics analysis of the BioPortal to quantify the effects of ontology variation, evolution and instance density on various tools such as bechmarking suites, Resource Index optimization, and SPARQL query optimization. The data for these analyses are archived below.
Publication materials and references will be forthcoming.
Download Metrics Files
- Ontology Metrics - metrics for all of the BioPortal ontologies taken on May 5, 2010.
- Annotation Metrics - metrics for the NCBO Resource Index taken on June 3, 2010.
Download Benchmark Ontologies
These ontologies were generated using the OntoGenerate tool using the given input parameters (randomization seed, no. individuals, depth, span, density).
- Small
- Small-Shallow (7, 1000000, 5, 6, 30)
- Small-Mid (100, 1000000, 10, 4, 40)
- Small-Deep (7, 1000000, 20, 2, 60)
- Medium
- Medium-Shallow (7, 1000000, 5, 6, 30)
- Medium-Mid (100, 1000000, 10, 4, 60)
- Medium-Deep (7, 1000000, 20, 6, 28)
- Large
- Large-Shallow (7, 1000000, 5, 11, 60)
- Large-Mid (7, 1000000, 6, 40)
- Large-Deep (7, 1000000, 20, 3, 52)