Wiki source code of Metadata models & schemas

Version 41.1 by oschmid on 2021/02/24 11:52
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lzehl 4.1 4 The openMINDS metadata models all consist of modular connectable metadata schemas. Each schema can be referenced by it's type and defines properties (including their expected value) for a set of related metadata.
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lzehl 21.1 7 A short overview for each openMINDS metadata model can be found below, including links to full HTML descriptions for all schemas and links to available metadata instances for selected schemas.
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lzehl 2.1 10 Note that all metadata models are licensed under the MIT license.
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lzehl 3.1 13 === openMINDS core ===
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lzehl 10.1 16 The openMINDS core metadata model contains schemas that can be used to describe the general origin, resource location, and content of research products in the field of neuroscience. Currently ( Feb 2021) this metadata model comprises 37 usable schemas, grouped into five classes:
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19 (% class="small" style="color:#7f8c8d" %)Click on a schema to discover its full HTML description.
oschmid 41.1 20 {{html}}<div>
21 <script>
22 function resize(evt){
23 alert('hello world');
24 }
25 </script>
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oschmid 41.1 27 <iframe src="https://humanbrainproject.github.io/openMINDS/core.html" width="100%" style="border:0; height: 28em" onload="resize"/>
28 </div>{{/html}}
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lzehl 16.1 31 In case of EBRAINS, metadata representations (instances) of the schemas marked with an asterisk are centrally defined and maintained on a separate GitHub to guarantee more consistency across the database instances of the Knowledge Graph (cf. section openMINDS instances).
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lzehl 14.1 34 For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
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lzehl 16.1 37 [[https:~~/~~/github.com/HumanBrainProject/openMINDS_core>>https://github.com/HumanBrainProject/openMINDS_core||rel="noopener noreferrer" target="_blank"]]
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lzehl 3.1 39 === openMINDS SANDS ===
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42 The openMINDS SANDS (**S**patial **A**nchoring for **N**euroscience **D**ata **S**tructures) metadata model contains schemas that can be used to capture the anatomical location of neuroscience data as well as to identify and highlight commonly used reference brain atlases and coordinate spaces. Currently (Feb 2021) this metadata model comprises 12 metadata schemas:
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lzehl 23.1 45 (% class="small" style="color:#7f8c8d" %)Click on a schema to discover its full HTML description.
lzehl 32.1 46 {{html}}<iframe src="https://humanbrainproject.github.io/openMINDS/SANDS.html" width="100%" style="border:0; height: 8em"/>{{/html}}
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49 For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
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52 [[https:~~/~~/github.com/HumanBrainProject/openMINDS_SANDS>>https://github.com/HumanBrainProject/openMINDS_SANDS]]
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lzehl 12.1 54 === openMINDS controlledTerms - schemas ===
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lzehl 13.1 57 The openMINDS controlledTerms metadata model contains schemas that ensure consistent registration of well-defined terms, including linkages to existing ontological terms where applicable. Currently (Feb 2021) this metadata model comprises 38 nearly identical schemas:
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lzehl 23.1 60 (% class="small" style="color:#7f8c8d" %)Click on a schema to discover its full HTML description.
lzehl 32.1 61 {{html}}<iframe src="https://humanbrainproject.github.io/openMINDS/controlledTerms.html" width="100%" style="border:0; height: 25em"/>{{/html}}
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lzehl 18.1 64 Except for TermSuggestion (marked with an asterisk), the openMINDS controlledTerms metadata schemas differ only in their type which defines the name of the terminology the correspondingly controlled terms are registered to (cf. openMINDS controlledTerms - terminologies).
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67 Compared to these schemas, the TermSuggestion has one additional property ("terminology") where users can state to which terminology the new suggested (not yet controlled) term belongs to. Within the EBRAINS Knowledge Graph, the metadata representations for TermSuggestion will be regularly reviewed by the openMINDS development team in order to integrate these community driven suggestions into the controlledTerms terminologies and corresponding ontology (where applicable).
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70 For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
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73 [[https:~~/~~/github.com/HumanBrainProject/openMINDS_controlledTerms>>https://github.com/HumanBrainProject/openMINDS_controlledTerms]]
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lzehl 19.1 75 === openMINDS controlledTerms - terminologies ===
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77 The openMINDS instances repository holds a collection of metadata representations (instances) of selected schemas which content should be more controlled to ensure their consistent definition and usage for the entire EBRAINS Knowledge Graph. Currently the repository holds collections for the following schemas:
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lzehl 32.1 80 (% class="small" style="color:#7f8c8d" %)//**Coming soon:** //Click on a schema to discover its available instances.
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82 {{container layoutStyle="columns"}}
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85 AgeCategory
86 AnatomicalAxesOrientation
87 BehavioralTask
88 BiologicalSex
89 CellType
90 ContributionType
91 CriteriaQualityType
92 DatasetType
93 Disease
94 DiseaseModel
95 EthicsAssessment
96 FileBundleGrouping
97 FileUsageRole
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101 Genotype
102 Language
103 Laterality
104 MetaDataModelType
105 Modality
106 ModelAbstractionLevel
107 ModelScope
108 OperatingDevice
109 OperatingSystem
110 Organ
111 Phenotype
112 PreparationType
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117 ProgrammingLanguage
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119 SoftwareApplicationCategory
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121 Species
122 Strain
123 Technique
124 Terminology
125 TissueSampleType
126 TypeOfUncertainty
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129 {{/container}}
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lzehl 2.1 131 === openMINDS instances ===
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lzehl 17.1 133 The openMINDS instances repository holds a collection of metadata representations (instances) of selected schemas which content should be more controlled to ensure their consistent definition and usage for the entire EBRAINS Knowledge Graph. Currently the repository holds collections for the following schemas:
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oschmid 33.1 136 (% class="small" style="color:#7f8c8d" %)//**Coming soon:**// Click on a schema to discover its available instances.
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lzehl 17.1 138 {{container layoutStyle="columns"}}
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141 contentType
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145 License
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149 DigitalIdentifierSchema
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151 {{/container}}
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154 For details, contributing or reviewing the openMINDS instances please checkout as well the corresponding GitHub repository:
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157 [[https:~~/~~/github.com/HumanBrainProject/openMINDS_instances>>https://github.com/HumanBrainProject/openMINDS_instances]]
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