Wiki source code of Metadata models & schemas

Version 45.1 by oschmid on 2021/02/24 11:55
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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 45.1 20 {{html clean="false"}}<iframe id="coreFrame" src="https://humanbrainproject.github.io/openMINDS/core.html" width="100%" style="border:0; height: 28em" onload="alert(document.getElementById('coreFrame').contentWindow.document.body.offsetHeight);"/>{{/html}}
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lzehl 16.1 23 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 26 For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
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lzehl 16.1 29 [[https:~~/~~/github.com/HumanBrainProject/openMINDS_core>>https://github.com/HumanBrainProject/openMINDS_core||rel="noopener noreferrer" target="_blank"]]
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lzehl 3.1 31 === openMINDS SANDS ===
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34 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 37 (% class="small" style="color:#7f8c8d" %)Click on a schema to discover its full HTML description.
lzehl 32.1 38 {{html}}<iframe src="https://humanbrainproject.github.io/openMINDS/SANDS.html" width="100%" style="border:0; height: 8em"/>{{/html}}
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41 For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
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44 [[https:~~/~~/github.com/HumanBrainProject/openMINDS_SANDS>>https://github.com/HumanBrainProject/openMINDS_SANDS]]
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lzehl 12.1 46 === openMINDS controlledTerms - schemas ===
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lzehl 13.1 49 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 52 (% class="small" style="color:#7f8c8d" %)Click on a schema to discover its full HTML description.
lzehl 32.1 53 {{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 56 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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59 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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62 For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
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65 [[https:~~/~~/github.com/HumanBrainProject/openMINDS_controlledTerms>>https://github.com/HumanBrainProject/openMINDS_controlledTerms]]
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lzehl 19.1 67 === openMINDS controlledTerms - terminologies ===
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69 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 72 (% class="small" style="color:#7f8c8d" %)//**Coming soon:** //Click on a schema to discover its available instances.
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74 {{container layoutStyle="columns"}}
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77 AgeCategory
78 AnatomicalAxesOrientation
79 BehavioralTask
80 BiologicalSex
81 CellType
82 ContributionType
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85 Disease
86 DiseaseModel
87 EthicsAssessment
88 FileBundleGrouping
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93 Genotype
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95 Laterality
96 MetaDataModelType
97 Modality
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100 OperatingDevice
101 OperatingSystem
102 Organ
103 Phenotype
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109 ProgrammingLanguage
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117 TissueSampleType
118 TypeOfUncertainty
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121 {{/container}}
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lzehl 2.1 123 === openMINDS instances ===
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lzehl 17.1 125 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 33.1 128 (% class="small" style="color:#7f8c8d" %)//**Coming soon:**// Click on a schema to discover its available instances.
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lzehl 17.1 130 {{container layoutStyle="columns"}}
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133 contentType
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137 License
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141 DigitalIdentifierSchema
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143 {{/container}}
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146 For details, contributing or reviewing the openMINDS instances please checkout as well the corresponding GitHub repository:
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149 [[https:~~/~~/github.com/HumanBrainProject/openMINDS_instances>>https://github.com/HumanBrainProject/openMINDS_instances]]
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