Biomedical Informatics

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Topic - Biomedical Informatics

BioPortal Import Plugin
The BioPortal Import Plugin allows users to import classes from external ontologies stored in the BioPortal ontology repository. The user can import entire trees of classes with a desired depth and choose which properties to import for each class. This plugin works with Protege 3.x releases, not Protege 4.x.
BioPortal Reference Plugin
The BioPortal Reference Plugin allows the user to insert into the ontology references to external ontologies and terminologies stored in BioPortal.
CompGuide Editor
CompGuide Editor is a tool used for the acquisition of Computer-Interpretable Guidelines in the CompGuide model for Clinical Practice Guidelines that also allows the editing of previously encoded guidelines. The Editor guides the users throughout the process of guideline encoding and does not require prociency in any programming language.
Expert System Shell r4f-pro
Integrated Development Environment for rete4frames rule engine and expert system shell based on Protege-3.5 ontology editor supplemented with visual creation of algorithms. It combines two well-known paradigms of software development: algorithms for strictly defined processes and rules for fuzzy, fragmentarily defined processes and phenomenons.
OPL Plugin
The OPL (Ontology Processing Language) transformation language has been designed as part of the GONG project. It has been adapted to work within Protege 4.x to test what further requirements are needed for ontology transforms.
[[Image:|thumb|170px|center]] OntoDebug
OntoDebug is a free and open-source interactive ontology debugger plugin for Protégé to resolve and repair inconsistent and incoherent ontologies.
[[Image:|thumb|170px|center]] SADI Service plugin
The SADI plugin for Protege is a a collection of views and tools, available in a single tab, that simplify the provision of SADI Semantic Web Services by integrating the service creation and deployment environment into the ontology design environment. This allows drag-n-drop editing and testing of SADI Service interfaces from the ontologies and knowledgebases displayed in Protege.
[[Image:|thumb|170px|center]] Snorocket
Snorocket for Protege is a Java implementation of the polynomial classification algorithm described by Baader et al in Pushing the EL Envelope and packaged for use as a reasoner in Protege.

Snorocket is capable of classifying SNOMED CT in under 1 minute.

Snow Owl
Snow Owl is a free SNOMED CT browser and authoring tool integrating Protégé.
Allows users to search the National Library of Medicine's Unified Medical Language System (UMLS) and annotate Protege ontologies with terms, concept IDs, synonyms, relations, and other information from the UMLS.

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