Difference between revisions of "Schema Representations"
From Meta-Omics Data of Collection Objects
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*'''Representation 1:''' versioned MOD-CO version 1.0 namespace scheme publication (static, snapshot): '''https://www.mod-co.net/wiki/MOD-CO_Schema_Reference''' | *'''Representation 1:''' versioned MOD-CO version 1.0 namespace scheme publication (static, snapshot): '''https://www.mod-co.net/wiki/MOD-CO_Schema_Reference''' | ||
| + | <div style="overflow:hidden;"> | ||
| + | {| cellpadding='0' align='left' width='800' style="border: 1px #FFFFFF solid; border-radius: 5px;" | ||
| + | |- | ||
| + | ! bgcolor='#FFFFFF' style="border-top-left-radius: 3px;" |[[File:DescriptorTrees.png|x250px|thumb|Concept collections (representation 1)]] | ||
| + | ! bgcolor='#FFFFFF' style="border-top-left-radius: 3px;" |[[File:DescriptorList.png|x250px|thumb|Concepts (representation 1)]] | ||
| + | |} | ||
| + | </div> | ||
*'''Representation 2:''' LOD-compliant MOD-CO version 1.0 namespace scheme publication under '''https://www.mod-co.net/wiki/MOD-CO''' with 2,463 [https://www.mod-co.net/wiki/Class:Concept 'concepts'], including 653 concepts (= [https://www.mod-co.net/wiki/Class:Class 'concept classes'] according to TDWG-compliant MediaWiki structure) and 1,810 (predefined) concept values (= [https://www.mod-co.net/wiki/Class:Property 'concept properties'] according to TDWG-compliant MediaWiki structure) | *'''Representation 2:''' LOD-compliant MOD-CO version 1.0 namespace scheme publication under '''https://www.mod-co.net/wiki/MOD-CO''' with 2,463 [https://www.mod-co.net/wiki/Class:Concept 'concepts'], including 653 concepts (= [https://www.mod-co.net/wiki/Class:Class 'concept classes'] according to TDWG-compliant MediaWiki structure) and 1,810 (predefined) concept values (= [https://www.mod-co.net/wiki/Class:Property 'concept properties'] according to TDWG-compliant MediaWiki structure) | ||
| + | <div style="overflow:hidden;"> | ||
| + | {| cellpadding='0' align='left' width='800' style="border: 1px #FFFFFF solid; border-radius: 5px;" | ||
| + | |- | ||
| + | ! bgcolor='#FFFFFF' style="border-left: 1px #FFFFFF solid;"|[[File:SemanticMediaWiki.png|x250px|thumb|Overview - Concept collections and concepts (representation 2)]] | ||
| + | ! bgcolor='#FFFFFF' style="border-left: 1px #FFFFFF solid;"|[[File:SemanticMediaWiki.png|x250px|thumb|Overview - Concept collections and concepts (representation 2)]] | ||
| + | |} | ||
| + | </div> | ||
:* The editing of concepts etc. for future versions is done in a master installation of ''DiversityDescriptions'' with export function. | :* The editing of concepts etc. for future versions is done in a master installation of ''DiversityDescriptions'' with export function. | ||
:* The editorial work will be followed by a regular data export and data import in the MOD-CO wiki for web access. | :* The editorial work will be followed by a regular data export and data import in the MOD-CO wiki for web access. | ||
:* The "View history" function of each wiki page is used to document the history of published editorial changes and have a documentation of the "issue date" and “modified date” for each single concept page. | :* The "View history" function of each wiki page is used to document the history of published editorial changes and have a documentation of the "issue date" and “modified date” for each single concept page. | ||
*'''Representation 3:''' SDD-structured XML document of MOD-CO version 1.0: '''MODCOschema1.0_SDDstructured.xml''' for download as ZIP archive [[:Media:MODCOschema1.0_SDDstructured.zip|'''here''']]. | *'''Representation 3:''' SDD-structured XML document of MOD-CO version 1.0: '''MODCOschema1.0_SDDstructured.xml''' for download as ZIP archive [[:Media:MODCOschema1.0_SDDstructured.zip|'''here''']]. | ||
| + | <div style="overflow:hidden;"> | ||
| + | {| cellpadding='0' align='left' width='800' style="border: 1px #FFFFFF solid; border-radius: 5px;" | ||
| + | |- | ||
| + | ! bgcolor='#FFFFFF' style="border-left: 1px #FFFFFF solid;"|[[File:SDD.png|x250px|thumb|SDD structured XML (representation 3)]] | ||
| + | ! bgcolor='#FFFFFF' style="border-left: 1px #FFFFFF solid;"|[[File:SDD.png|x250px|thumb|SDD structured XML (representation 3)]] | ||
| + | |} | ||
| + | </div> | ||
**This XML representation might be imported in any installation of the ''DiversityDescriptions'' application or other applications with interfaces for data exchange with SDD. For download of ''DiversityDescriptions'' database and client see https://diversityworkbench.net/Portal/DiversityDescriptions for SDD as a metastandard see [https://www.tdwg.org/standards/sdd/ Standard Description Download] and [http://rs.tdwg.org/UBIF/2006/Schema/SDD1.1rev5.zip SDD Schema files SDD1.1rev5]. | **This XML representation might be imported in any installation of the ''DiversityDescriptions'' application or other applications with interfaces for data exchange with SDD. For download of ''DiversityDescriptions'' database and client see https://diversityworkbench.net/Portal/DiversityDescriptions for SDD as a metastandard see [https://www.tdwg.org/standards/sdd/ Standard Description Download] and [http://rs.tdwg.org/UBIF/2006/Schema/SDD1.1rev5.zip SDD Schema files SDD1.1rev5]. | ||
**It will be available as data publication through [https://www.gfbio.org/ GFBio] data pipelines with appropriate GFBio parameter assignments and SNSB as GFBio data center. | **It will be available as data publication through [https://www.gfbio.org/ GFBio] data pipelines with appropriate GFBio parameter assignments and SNSB as GFBio data center. | ||
*'''Representation 4:''' two ''DiversityDescriptions'' installations at the SNSB IT Center with MOD-CO schema version 1.0, one as read-only access for anonymous DWB users (DWB cloud services) and the other for training and outreach purposes, i.e., '''integrated in the''' [https://diversityworkbench.net/Portal/DWB_training_environment '''DWB Training environment''']. | *'''Representation 4:''' two ''DiversityDescriptions'' installations at the SNSB IT Center with MOD-CO schema version 1.0, one as read-only access for anonymous DWB users (DWB cloud services) and the other for training and outreach purposes, i.e., '''integrated in the''' [https://diversityworkbench.net/Portal/DWB_training_environment '''DWB Training environment''']. | ||
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<div style="overflow:hidden;"> | <div style="overflow:hidden;"> | ||
{| cellpadding='0' align='left' width='800' style="border: 1px #FFFFFF solid; border-radius: 5px;" | {| cellpadding='0' align='left' width='800' style="border: 1px #FFFFFF solid; border-radius: 5px;" | ||
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! bgcolor='#FFFFFF' style="border-left: 1px #FFFFFF solid;"|[[File:DescriptorTree2.png|x250px|thumb|Descriptor tree view in DiversityDescriptions (representation 4)]] | ! bgcolor='#FFFFFF' style="border-left: 1px #FFFFFF solid;"|[[File:DescriptorTree2.png|x250px|thumb|Descriptor tree view in DiversityDescriptions (representation 4)]] | ||
| + | ! bgcolor='#FFFFFF' style="border-left: 1px #FFFFFF solid;"|[[File:DescriptorTree2.png|x250px|thumb|Descriptor tree view in DiversityDescriptions (representation 4)]] | ||
| + | |} | ||
| + | </div> | ||
| + | *'''Representation 5:''' '''Normative XSD (= XML Schema Definition)''' for MOD-CO schema version 1.0 is available under http://schema.mod-co.net/MOD-CO_1.0.xsd'''. | ||
| + | <div style="overflow:hidden;"> | ||
| + | {| cellpadding='0' align='left' width='800' style="border: 1px #FFFFFF solid; border-radius: 5px;" | ||
| + | |- | ||
! bgcolor='#FFFFFF' style="border-left: 1px #FFFFFF solid;"|[[File:XSD.png|x250px|thumb|XML schema definition for MOD-CO (representation 5)]] | ! bgcolor='#FFFFFF' style="border-left: 1px #FFFFFF solid;"|[[File:XSD.png|x250px|thumb|XML schema definition for MOD-CO (representation 5)]] | ||
! bgcolor='#FFFFFF' style="border-left: 1px #FFFFFF solid;"|[[File:XML.png|x250px|thumb|XML document of MOD-CO use case (representation 5)]] | ! bgcolor='#FFFFFF' style="border-left: 1px #FFFFFF solid;"|[[File:XML.png|x250px|thumb|XML document of MOD-CO use case (representation 5)]] | ||
|} | |} | ||
</div> | </div> | ||
| + | **The generation of the XSD with ''DiversityDescriptions'' is explained under [[MOD-CO normative XSD representation]]. The XSD is for validation of any external XML document assumed to be structured according MOD-CO concerning well-formedness. Validation might be done using any online XML validator. <!--, e.g. [https://www.freeformatter.com/xml-validator-xsd.html].--> | ||
---- | ---- | ||
===[[Feedback area]]=== | ===[[Feedback area]]=== | ||
Revision as of 15:50, 8 December 2018
Conceptual and procedural schemas and community standards are established to provide a common understanding of the meaning or semantics of data and data pipelines. They are built on sets of vocabulary/ ontology terms which can be used to describe resources for the purposes of discovery. Schema(s) and standard(s) enable structured data management and data exchange between data storage structures. Schema(s) might rely on standard vocabularies. In the MOD-CO context meta-omics-related vocabularies are evaluated.
MOD-CO is developing a conceptual and procedural meta-omics schema published in various kind of schema representations. With that, MOD-CO is providing specifications useful for later software implementation and facilitates international standardisation processes.
MOD-CO schema namespace in numbers
see under modco
Access to MOD-CO schema
- Representation 1: versioned MOD-CO version 1.0 namespace scheme publication (static, snapshot): https://www.mod-co.net/wiki/MOD-CO_Schema_Reference
- Representation 2: LOD-compliant MOD-CO version 1.0 namespace scheme publication under https://www.mod-co.net/wiki/MOD-CO with 2,463 'concepts', including 653 concepts (= 'concept classes' according to TDWG-compliant MediaWiki structure) and 1,810 (predefined) concept values (= 'concept properties' according to TDWG-compliant MediaWiki structure)
- The editing of concepts etc. for future versions is done in a master installation of DiversityDescriptions with export function.
- The editorial work will be followed by a regular data export and data import in the MOD-CO wiki for web access.
- The "View history" function of each wiki page is used to document the history of published editorial changes and have a documentation of the "issue date" and “modified date” for each single concept page.
- Representation 3: SDD-structured XML document of MOD-CO version 1.0: MODCOschema1.0_SDDstructured.xml for download as ZIP archive here.
- This XML representation might be imported in any installation of the DiversityDescriptions application or other applications with interfaces for data exchange with SDD. For download of DiversityDescriptions database and client see https://diversityworkbench.net/Portal/DiversityDescriptions for SDD as a metastandard see Standard Description Download and SDD Schema files SDD1.1rev5.
- It will be available as data publication through GFBio data pipelines with appropriate GFBio parameter assignments and SNSB as GFBio data center.
- Representation 4: two DiversityDescriptions installations at the SNSB IT Center with MOD-CO schema version 1.0, one as read-only access for anonymous DWB users (DWB cloud services) and the other for training and outreach purposes, i.e., integrated in the DWB Training environment.
- Representation 5: Normative XSD (= XML Schema Definition) for MOD-CO schema version 1.0 is available under http://schema.mod-co.net/MOD-CO_1.0.xsd.
- The generation of the XSD with DiversityDescriptions is explained under MOD-CO normative XSD representation. The XSD is for validation of any external XML document assumed to be structured according MOD-CO concerning well-formedness. Validation might be done using any online XML validator.
