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Welcome to the '''National Center for Biomedical Ontology (NCBO) public wiki'''. This wiki provides information about collaborative ontology development efforts, as well as user guides and technical documentation for software developed by the NCBO.
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Welcome to the '''National Center for Biomedical Ontology (NCBO) public wiki'''. This wiki provides user guides and technical documentation for software developed by NCBO.
  
Please visit our [http://www.bioontology.org main site] for more information about the NCBO.
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Note that as the NCBO project funding has ended, documentation for some projects or project details (n.b., NCBO BioPortal details) may be out of date. Pease send email to the BioPortal Support List
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Please visit our [http://www.bioontology.org main site] for more information about NCBO.
  
  
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== Software ==
 
== Software ==
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To follow is a list of software developed and maintained by NCBO:
  
*[http://bioportal.bioontology.org NCBO BioPortal] - Home page of the BioPortal application
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* [https://bioportal.bioontology.org BioPortal] - A web-based application for accessing and sharing biomedical ontologies
* [http://sparql.bioontology.org/ NCBO BioPortal SPARQL Endpoint] - Access BioPortal via SPARQL queries ''(obsolete)''
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* [https://data.bioontology.org/ BioPortal REST API] - A RESTful API to access BioPortal content
* [http://www.bioontology.org/wiki/index.php/Category:NCBO_Virtual_Appliance BioPortal Virtual Appliance] - Contains BioPortal, Annotator, and Recommender
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* [[:Category:NCBO_Virtual_Appliance|BioPortal Virtual Appliance]] - Contains BioPortal and the BioPortal REST API, runs on Linux
* [http://www.bioontology.org/wiki/index.php/BioPortal_Release_Notes BioPortal Software Release Announcements]  
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* [http://sparql.bioontology.org/ BioPortal SPARQL Endpoint] - Access BioPortal content via SPARQL queries ''(obsolete)''
 
 
 
 
== User Support Documentation ==
 
  
*[[BioPortal Help]] - General BioPortal help documentation.
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Please refer to our [[BioPortal_Release_Notes|release notes]] page for change logs.
* [http://www.bioontology.org/wiki/index.php/Using_NCBO_Technology_In_Your_Project Using NCBO Technology in Your Project] - Documentation on how to use NCBO Technology in your project
 
  
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== Documentation ==
  
== Technical Documentation ==
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* [[BioPortal Help|BioPortal]] - get help with the user interface and instructions for commonly performed tasks
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* [http://data.bioontology.org/documentation BioPortal REST API] - see a list of available endpoints with usage instructions
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* [[:Category:NCBO_Virtual_Appliance|BioPortal Virtual Appliance]] - read a getting started guide and installation instructions
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* [[Using_NCBO_Technology_In_Your_Project|Using NCBO technologies in your project]] - get ideas for how to employ NCBO technologies in your website or application
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* [[SKOSSupport|SKOS support]] - view the specifics of BioPortal's support for SKOS vocabularies
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* [[SPARQL_BioPortal|BioPortal SPARQL Endpoint]] - read about programmatic submission of SPARQL queries and the named graph structure
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* [[NCBO_Developer_Documentation|Developer documentation]]
  
* [http://data.bioontology.org/documentation NCBO REST Web services] - Listing of all NCBO web services with usage documentation
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=== Mail Support ===
* [http://www.bioontology.org/wiki/index.php/SPARQL_BioPortal BioPortal SPARQL Endpoint] - BioPortal SPARQL documentation
 
* [http://www.bioontology.org/wiki/index.php/Category:NCBO_Virtual_Appliance BioPortal Virtual Appliance] - Contains BioPortal, Annotator, and Resource Index.
 
* [http://www.bioontology.org/wiki/index.php/NCBO_Developer_Documentation Developer Documentation] - Some documentation for developers
 
  
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* [https://mailman.stanford.edu/mailman/listinfo/bioontology-support BioPortal Support List] - sign up to see and request community support for BioPortal
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* [https://mailman.stanford.edu/pipermail/bioontology-support/ BioPortal mailman email archives] - the usual mailman archive format for BioPortal support list
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* [http://ncbo-support.2288202.n4.nabble.com/ BioPortal nabble email archives] - BioPortal support email list archives in easier format to search and navigate
  
 
== Ontology Development Projects ==
 
== Ontology Development Projects ==
  
These are some of the ontology development projects that NCBO has participated in:
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These are some of the ontology development projects that NCBO participated in:
 
   
 
   
* [[BRO:Main_Page]] - Biomedical Resource Ontology
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* [http://bioportal.bioontology.org/ontologies/BRO Biomedical Resource Ontology]
* [[TMO:]] - Translational Medicine Ontology  
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* [http://bioportal.bioontology.org/ontologies/TMO Translational Medicine Ontology]
* [[NPO:Main_Page]] - NanoParticle Ontology
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* [[NPO:Main_Page|NanoParticle Ontology]]  
* [[PATO:Main_Page]] - An ontology of phenotypic qualities
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* [http://bioportal.bioontology.org/ontologies/PATO Phenotypic Quality Ontology]
* [[RO:Main_Page]] - OBO Relations ontology
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* [[RO:Main_Page|OBO Relations Ontology]]
* [[CARO:Main_Page]] - Reference anatomical ontology
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* [[CARO:Main_Page|Common Anatomy Reference Ontology]]
* [[CL:Main_Page]] - OBO Cell ontology
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* [[CL:Main_Page|Cell Ontology]]
* [[SO:Main_Page]] - Sequence Ontology
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* [[SO:Main_Page|Sequence Types and Features Ontology]]
* [[Disease:Main_Page]] - Disease Ontology, and other ontologies pertaining to diseases and disorders
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* [[Disease:Main_Page|Disease Ontology]], and other ontologies pertaining to diseases and disorders
* [[OCI:Main_Page]] - Ontology of Clinical Investigation
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* [[OCI:Main_Page|Ontology of Clinical Investigation]]

Latest revision as of 12:58, 3 January 2018

Welcome to the National Center for Biomedical Ontology (NCBO) public wiki. This wiki provides user guides and technical documentation for software developed by NCBO.

Note that as the NCBO project funding has ended, documentation for some projects or project details (n.b., NCBO BioPortal details) may be out of date. Pease send email to the BioPortal Support List

Please visit our main site for more information about NCBO.


Software

To follow is a list of software developed and maintained by NCBO:

Please refer to our release notes page for change logs.

Documentation

Mail Support

Ontology Development Projects

These are some of the ontology development projects that NCBO participated in: