ontology:OtherOntologies

From NITRC Wiki

NDG / NIF

http://ndg.sfn.org/

• Experimental data
• General bioinformatics
• Genomics/Proteomics
• Knowledge
• Links
• Materials
• Tools
• Under development

The beta test site for the NIF can be accessed from http://nif.nih.gov (click on NIF Beta in the upper right corner). Any feedback that you can provide is welcome. If you have trouble with any of the features, just let me know. There are tutorials available. (communicated by Maryann Martone)

Simbiome

http://www.loni.ucla.edu/twiki/bin/view/CCB/NCBC_ToolIntegration_XMLtology_Meeting_103106_ResourceDef

Currently uses these types:

• Software: Algorithm or Reusable Library
• Software: Platform, Development Environment
• Software: Simulation Application
• Software: Support Tool
• Web / Online Resource
• Database or Data Source

General Suggestion to describe ALL Biocomputation Resources

• Software: Application
• Software: Platform, Development Environment
• Software: Algorithm or Reusable Library
• Data: Human Readable Online Information
• Data: Model or Data Source or Database
• Service

BIRNConnection (i.e. BIRNLex)

From BIRNLex

•owl:Thing •entity •continuant •generically_dependent_continuants •Digital_aggregate_entity •Software_toolkit

obo_annot:tempDefinition Software delivered in source or binary form as a collection of independent modules whereby the kit components can be used independently of each other or included as part of another program (derived from NCBC Software Ontology) (BB:2007-03-07).

Examples: AFNI, FMRIB_Software_Library

Ontology for Biomedical Investigations (OBI) http://obi.sourceforge.net/

XCEDE http://nbirn.net/downloads/xcede/index.shtm

 <xsd:complexType name="processStep_t">
 -
	<xsd:sequence>
 <xsd:element name="programName" type="xcede:mixedType_t"/>
 <xsd:element name="programArgument" type="xcede:mixedType_t"/>
 <xsd:element name="version" type="xcede:mixedType_t"/>
 <xsd:element name="timeStamp" type="xcede:mixedType_t"/>
 <xsd:element name="cvs" type="xcede:mixedType_t" minOccurs="0"/>
 <xsd:element name="user" type="xcede:mixedType_t"/>
 <xsd:element name="machine" type="xcede:mixedType_t"/>
 <xsd:element name="platform" type="xcede:mixedType_t"/>
 <xsd:element name="platformVersion" type="xcede:mixedType_t"/>
 -
	<xsd:sequence minOccurs="0">
 <xsd:element name="compilerName" type="xcede:mixedType_t"/>
 <xsd:element name="compilerVersion" type="xcede:mixedType_t"/>
 </xsd:sequence>
 -
	<xsd:sequence minOccurs="0" maxOccurs="unbounded">
 <xsd:element name="libName" type="xcede:mixedType_t/>
 <xsd:element name="libVersion" type="xcede:mixedType_t"/>
 </xsd:sequence>
 </xsd:sequence>
 </xsd:complexType>

RADLex

The RadLex project is the development of a controlled terminology, issued under an open content license that covers imaging procedures and interventions.

https://gforge.nci.nih.gov/projects/radlex/

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