Changes for page Metadata models and schemas
Last modified by lzehl on 2021/07/02 17:06
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... ... @@ -4,7 +4,7 @@ 4 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. 5 5 6 6 (% style="text-align: justify;" %) 7 - Pleasefind theHTML descriptionforall schemas of each openMINDS metadata modelinthecorresponding sub-pages.Ashortoverviewforeach openMINDSmetadatamodel canbe foundbelow.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. 8 8 9 9 (% style="text-align: justify;" %) 10 10 Note that all metadata models are licensed under the MIT license. ... ... @@ -15,6 +15,13 @@ 15 15 (% style="text-align: justify;" %) 16 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: 17 17 18 +(% style="text-align: right;" %) 19 +(% class="small" style="color:#7f8c8d" %)Click on a schema to discover its full HTML description. 20 + 21 +{{html}} 22 +<iframe src="https://humanbrainproject.github.io/openMINDS/core.html" width="100%" style="border:0; height: 28em"/> 23 +{{/html}} 24 + 18 18 {{container layoutStyle="columns"}} 19 19 ((( 20 20 (% class="small" %) ... ... @@ -26,19 +26,19 @@ 26 26 Person 27 27 (% class="small" %) 28 28 **DATA** 29 -ContentType 36 +ContentType* 30 30 Copyright 31 31 FileBundle 32 32 FileInstance 33 33 FileRepository 34 34 Hash 35 -License 42 +License* 36 36 ))) 37 37 ((( 38 38 (% class="small" %) 39 39 **MISCELLANEOUS** 40 40 DigitalIdentifier 41 -DigitalIdentifierSchema 48 +DigitalIdentifierSchema* 42 42 Funding 43 43 QuantitativeValue 44 44 QuantitativeValueRange ... ... @@ -71,11 +71,26 @@ 71 71 ))) 72 72 {{/container}} 73 73 81 +(% class="wikigeneratedid" style="text-align: justify;" %) 82 +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). 83 + 84 +(% class="wikigeneratedid" style="text-align: justify;" %) 85 +For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository: 86 + 87 +(% class="wikigeneratedid" %) 88 +[[https:~~/~~/github.com/HumanBrainProject/openMINDS_core>>https://github.com/HumanBrainProject/openMINDS_core||rel="noopener noreferrer" target="_blank"]] 89 + 74 74 === openMINDS SANDS === 75 75 76 76 (% style="text-align: justify;" %) 77 77 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: 78 78 95 +(% style="text-align: right;" %) 96 +(% class="small" style="color:#7f8c8d" %)Click on a schema to discover its full HTML description. 97 + 98 +(% style="text-align: right;" %) 99 +(% class="small" style="color:#7f8c8d" %){{html}}<iframe src="https://humanbrainproject.github.io/openMINDS/SANDS.html" width="100%" style="border:0; height: 8em"/>{{/html}} 100 + 79 79 {{container layoutStyle="columns"}} 80 80 ((( 81 81 (% class="small" %) ... ... @@ -100,11 +100,23 @@ 100 100 ))) 101 101 {{/container}} 102 102 125 +(% class="wikigeneratedid" style="text-align: justify;" %) 126 +For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository: 127 + 128 +(% class="wikigeneratedid" %) 129 +[[https:~~/~~/github.com/HumanBrainProject/openMINDS_SANDS>>https://github.com/HumanBrainProject/openMINDS_SANDS]] 130 + 103 103 === openMINDS controlledTerms - schemas === 104 104 105 105 (% style="text-align: justify;" %) 106 106 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: 107 107 136 +(% style="text-align: right;" %) 137 +(% class="small" style="color:#7f8c8d" %)Click on a schema to discover its full HTML description. 138 + 139 +(% style="text-align: right;" %) 140 +(% class="small" style="color:#7f8c8d" %){{html}}<iframe src="https://humanbrainproject.github.io/openMINDS/SANDS.html" width="100%" style="border:0; height: 25em"/>{{/html}} 141 + 108 108 {{container layoutStyle="columns"}} 109 109 ((( 110 110 (% class="small" %) ... ... @@ -147,7 +147,7 @@ 147 147 Species 148 148 Strain 149 149 Technique 150 -TermSuggestion 184 +TermSuggestion* 151 151 Terminology 152 152 TissueSampleType 153 153 TypeOfUncertainty ... ... @@ -156,8 +156,97 @@ 156 156 {{/container}} 157 157 158 158 (% style="text-align: justify;" %) 159 -Except for TermSuggestion, 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). 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.193 +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). 160 160 195 +(% style="text-align: justify;" %) 196 +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). 197 + 198 +(% class="wikigeneratedid" style="text-align: justify;" %) 199 +For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository: 200 + 201 +(% class="wikigeneratedid" %) 202 +[[https:~~/~~/github.com/HumanBrainProject/openMINDS_controlledTerms>>https://github.com/HumanBrainProject/openMINDS_controlledTerms]] 203 + 204 +=== openMINDS controlledTerms - terminologies === 205 + 206 +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: 207 + 208 +(% style="text-align: right;" %) 209 +(% class="small" style="color:#7f8c8d" %)Click on a schema to discover its available instances (including their Knowledge Graph ID). 210 + 211 +{{container layoutStyle="columns"}} 212 +((( 213 +(% class="small" %) 214 +AgeCategory 215 +AnatomicalAxesOrientation 216 +BehavioralTask 217 +BiologicalSex 218 +CellType 219 +ContributionType 220 +CriteriaQualityType 221 +DatasetType 222 +Disease 223 +DiseaseModel 224 +EthicsAssessment 225 +FileBundleGrouping 226 +FileUsageRole 227 +))) 228 +((( 229 +(% class="small" %) 230 +Genotype 231 +Language 232 +Laterality 233 +MetaDataModelType 234 +Modality 235 +ModelAbstractionLevel 236 +ModelScope 237 +OperatingDevice 238 +OperatingSystem 239 +Organ 240 +Phenotype 241 +PreparationType 242 +ProductAccessibility 243 +))) 244 +((( 245 +(% class="small" %) 246 +ProgrammingLanguage 247 +QualitativeOverlap 248 +SoftwareApplicationCategory 249 +SoftwareFeature 250 +Species 251 +Strain 252 +Technique 253 +Terminology 254 +TissueSampleType 255 +TypeOfUncertainty 256 +UnitOfMeasurement 257 +))) 258 +{{/container}} 259 + 161 161 === openMINDS instances === 162 162 163 -xxx 262 +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: 263 + 264 +(% style="text-align: right;" %) 265 +(% class="small" style="color:#7f8c8d" %)Click on a schema to discover its available instances (including their Knowledge Graph ID). 266 + 267 +{{container layoutStyle="columns"}} 268 +((( 269 +(% class="small" %) 270 +contentType 271 +))) 272 +((( 273 +(% class="small" %) 274 +License 275 +))) 276 +((( 277 +(% class="small" %) 278 +DigitalIdentifierSchema 279 +))) 280 +{{/container}} 281 + 282 +(% class="wikigeneratedid" style="text-align: justify;" %) 283 +For details, contributing or reviewing the openMINDS instances please checkout as well the corresponding GitHub repository: 284 + 285 +(% class="wikigeneratedid" %) 286 +[[https:~~/~~/github.com/HumanBrainProject/openMINDS_instances>>https://github.com/HumanBrainProject/openMINDS_instances]]