Protege Wiki - User contributions [en]

OntoCheck

2015-04-27T13:33:11Z

Dschober:

{{Plugin
|Description=The OntoCheck P4 plugin allows to define clean-up checks on a generated owl ontology - e.g. to be stored and carried out before each ontology release. Found test violations can be corrected to foster consistency in entity naming and meta-annotation. Once specified, check-constraints like name patterns can be stored and exchanged for later re-use. The plugin allows the user to specify checks on certain properties of an active ontology (OntoCheck) and allows for improvements (OntoCure) in the areas of

a) Metadata completeness, e.g. via cardinality checks on mandatory and optional annotation properties

b) Naming Conventions, e.g. via lexical analysis and labeling enforcement for representational units (RU) names and IDs.

Thereby this plugin fosters lexical harmonization as e.g. demanded by the OBO Foundry Naming Conventions at http://www.obofoundry.org/wiki/index.php/Naming

A paper describing OntoChecks functionalities in more detail can be found at

http://www.ncbi.nlm.nih.gov/pubmed/23046606
|PluginType=Tab Widget
|PluginType2=Project
|ForApplication1=Protege-OWL 4.1
|Screenshot=Figure_1.gif
|HomepageURL=http://www2.imbi.uni-freiburg.de/ontology/OntoCheck/
|DeveloperID1=Daniel Schober
|DeveloperID2=Ilinca Tudose
|DeveloperID3=Martin Boeker
|LastUpdated=September 25, 2012
|Topic1=Validation
|Topic2=Project Management
|Topic3=Terminologies
|License=Creative Commons open source
|Affiliation1=Institute of Medical Biometry and Medical Informatics (IMBI), University Medical Center, 79104 Freiburg
}}

|free text=}}

OntoCheck

2013-04-25T14:43:32Z

Dschober:

{{Plugin
|Description=The OntoCheck P4 plugin allows to define clean-up checks on a generated owl ontology - e.g. to be stored and carried out before each ontology release. Found test violations can be corrected to foster consistency in entity naming and meta-annotation. Once specified, check-constraints like name patterns can be stored and exchanged for later re-use. The plugin allows the user to specify checks on certain properties of an active ontology (OntoCheck) and allows for improvements (OntoCure) in the areas of

a) Metadata completeness, e.g. via cardinality checks on mandatory and optional annotation properties

b) Naming Conventions, e.g. via lexical analysis and labeling enforcement for representational units (RU) names and IDs.

Thereby this plugin fosters lexical harmonization as e.g. demanded by the OBO Foundry Naming Conventions at http://www.obofoundry.org/wiki/index.php/Naming

A paper describing OntoChecks functionalities in more detail can be found at

http://www.ncbi.nlm.nih.gov/pubmed/23046606
|PluginType=Tab Widget
|PluginType2=Project
|ForApplication1=Protege-OWL 4.1
|Screenshot=http://protegewiki.stanford.edu/images/5/53/Figure_1.gif
|HomepageURL=http://www.imbi.uni-freiburg.de/ontology/OntoCheck/
|DeveloperID1=Daniel Schober
|DeveloperID2=Ilinca Tudose
|DeveloperID3=Martin Boeker
|LastUpdated=September 25, 2012
|Topic1=Validation
|Topic2=Project Management
|Topic3=Terminologies
|License=Creative Commons open source
|Affiliation1=Institute of Medical Biometry and Medical Informatics (IMBI), University Medical Center, 79104 Freiburg
}}

|free text=}}
|free text=}}
|free text=}}
|free text=}}

File:Figure 1.gif

2013-04-25T14:42:37Z

Dschober: The Check panel displays the specification (left) of a test for an 'all lower case, space separator' naming convention on rdfs:label for the active ontology. The 'statistical data' view (middle) lists a history of launched checks and quantifies their r...

The Check panel displays the specification (left) of a test for an 'all lower case, space separator' naming convention on rdfs:label for the active ontology. The 'statistical data' view (middle) lists a history of launched checks and quantifies their results in terms of absolute amount of classes failing a test. Percentages are given with respect to the overall number of entry node descendants. One of the result classes, 'BuildingPart', is activated to show the found violation in the label, which is MixedCase as seen in the metadata pane below. Clicking on a class in the result pane (right) will activate it in the class hierarchy pane (left) opening a metadata edit pane to allow for corrections (below). The lower right corner shows how a file name and location can be selected to export the result list.

OntoCheck

2013-04-25T14:34:48Z

Dschober:

{{Plugin
|Description=The OntoCheck P4 plugin allows to define clean-up checks on a generated owl ontology - e.g. to be stored and carried out before each ontology release. Found test violations can be corrected to foster consistency in entity naming and meta-annotation. Once specified, check-constraints like name patterns can be stored and exchanged for later re-use. The plugin allows the user to specify checks on certain properties of an active ontology (OntoCheck) and allows for improvements (OntoCure) in the areas of

a) Metadata completeness, e.g. via cardinality checks on mandatory and optional annotation properties

b) Naming Conventions, e.g. via lexical analysis and labeling enforcement for representational units (RU) names and IDs.

Thereby this plugin fosters lexical harmonization as e.g. demanded by the OBO Foundry Naming Conventions at http://www.obofoundry.org/wiki/index.php/Naming

A paper describing OntoChecks functionalities in more detail can be found at

http://www.ncbi.nlm.nih.gov/pubmed/23046606
|PluginType=Tab Widget
|PluginType2=Project
|ForApplication1=Protege-OWL 4.1
|Screenshot=http://www.imbi.uni-freiburg.de/ontology/OntoCheck/CheckTabNew.png
|HomepageURL=http://www.imbi.uni-freiburg.de/ontology/OntoCheck/
|DeveloperID1=Daniel Schober
|DeveloperID2=Ilinca Tudose
|DeveloperID3=Martin Boeker
|LastUpdated=September 25, 2012
|Topic1=Validation
|Topic2=Project Management
|Topic3=Terminologies
|License=Creative Commons open source
|Affiliation1=Institute of Medical Biometry and Medical Informatics (IMBI), University Medical Center, 79104 Freiburg
}}

|free text=}}
|free text=}}
|free text=}}

File:CheckTabNew.png

2013-04-25T09:55:16Z

Dschober: The Check panel. The Check panel displays the specification (left) of a test for an 'all lower case, space separator' naming convention on rdfs:label for the active ontology. The 'statistical data' view (middle) lists a history of launched checks and q...

The Check panel. The Check panel displays the specification (left) of a test for an 'all lower case, space separator' naming convention on rdfs:label for the active ontology. The 'statistical data' view (middle) lists a history of launched checks and quantifies their results in terms of absolute amount of classes failing a test. Percentages are given with respect to the overall number of entry node descendants.

OntoCheck

2013-04-25T09:53:04Z

Dschober:

{{Plugin
|Description=The OntoCheck P4 plugin allows clean-up checks a generated ontology - e.g. to be stored and carried out before each ontology release. Found test violations can be corrected to foster consistency in entity naming and meta-annotation within an artefact. Once specified, check constraints like name patterns can be stored and exchanged for later re-use. The plugin allows the user to specify checks on certain properties of an active ontology (OntoCheck) and allows for improvements (OntoCure) in the areas of

a) Metadata completeness, e.g. via cardinality checks on mandatory and optional annotation properties

b) Naming Conventions, e.g. via lexical analysis and labeling enforcement for representational units (RU) names and IDs.

This plugin fosters lexical harmonization as e.g. demanded by the OBO Foundry Naming Conventions at http://www.obofoundry.org/wiki/index.php/Naming

A paper describing OntoChecks functionalities can be found at

http://www.ncbi.nlm.nih.gov/pubmed/23046606
|PluginType=Tab Widget
|PluginType2=Project
|ForApplication1=Protege-OWL 4.1
|Screenshot=http://www.imbi.uni-freiburg.de/ontology/OntoCheck/CheckTabNew.png
|HomepageURL=http://www.imbi.uni-freiburg.de/ontology/OntoCheck/
|DeveloperID1=Daniel Schober
|DeveloperID2=Ilinca Tudose
|DeveloperID3=Martin Boeker
|LastUpdated=September 25, 2012
|Topic1=Validation
|Topic2=Project Management
|Topic3=Terminologies
|License=Creative Commons open source
|Affiliation1=Institute of Medical Biometry and Medical Informatics (IMBI), University Medical Center, 79104 Freiburg
}}

|free text=}}
|free text=}}

OntoCheck

2013-04-25T09:51:26Z

Dschober: The OntoCheck plugin facilitates labelling error detection and curation, contributing to lexical quality assurance in OWL ontologies.

{{Plugin
|Description=The OntoCheck P4 plugin allows clean-up checks a generated ontology - e.g. to be stored and carried out before each ontology release. Found test violations can be corrected to foster consistency in entity naming and meta-annotation within an artefact. Once specified, check constraints like name patterns can be stored and exchanged for later re-use. The plugin allows the user to specify checks on certain properties of an active ontology (OntoCheck) and allows for improvements (OntoCure) in the areas of

a) Metadata completeness, e.g. via cardinality checks on mandatory and optional annotation properties

b) Naming Conventions, e.g. via lexical analysis and labeling enforcement for representational units (RU) names and IDs.

This plugin fosters lexical harmonization as e.g. demanded by the OBO Foundry Naming Conventions at http://www.obofoundry.org/wiki/index.php/Naming

A paper describing OntoChecks functionalities can be found at

http://www.ncbi.nlm.nih.gov/pubmed/23046606

|PluginType=Tab Widget
|PluginType2=Project
|ForApplication1=Protege-OWL 4.1
|HomepageURL=http://www.imbi.uni-freiburg.de/ontology/OntoCheck/
|DeveloperID1=Daniel Schober
|DeveloperID2=Ilinca Tudose
|DeveloperID3=Martin Boeker
|LastUpdated=September 25, 2012
|Topic1=Validation
|Topic2=Project Management
|Topic3=Terminologies
|License=Creative Commons open source
|Affiliation1=Institute of Medical Biometry and Medical Informatics (IMBI), University Medical Center, 79104 Freiburg
}}

|free text=}}