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. ... ... @@ -12,8 +12,16 @@ 12 12 13 13 === openMINDS core === 14 14 15 +(% style="text-align: justify;" %) 15 15 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: 16 16 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 + 17 17 {{container layoutStyle="columns"}} 18 18 ((( 19 19 (% class="small" %) ... ... @@ -25,19 +25,19 @@ 25 25 Person 26 26 (% class="small" %) 27 27 **DATA** 28 -ContentType 36 +ContentType* 29 29 Copyright 30 30 FileBundle 31 31 FileInstance 32 32 FileRepository 33 33 Hash 34 -License 42 +License* 35 35 ))) 36 36 ((( 37 37 (% class="small" %) 38 38 **MISCELLANEOUS** 39 39 DigitalIdentifier 40 -DigitalIdentifierSchema 48 +DigitalIdentifierSchema* 41 41 Funding 42 42 QuantitativeValue 43 43 QuantitativeValueRange ... ... @@ -70,10 +70,26 @@ 70 70 ))) 71 71 {{/container}} 72 72 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 + 73 73 === openMINDS SANDS === 74 74 75 -The openMINDS SANDS (Spatial Anchoring for Neuroscience Data Structures) 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: 92 +(% style="text-align: justify;" %) 93 +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: 76 76 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: 28em"/>{{/html}} 100 + 77 77 {{container layoutStyle="columns"}} 78 78 ((( 79 79 (% class="small" %) ... ... @@ -98,10 +98,162 @@ 98 98 ))) 99 99 {{/container}} 100 100 101 -=== openMINDS controlledTerms === 125 +(% class="wikigeneratedid" style="text-align: justify;" %) 126 +For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository: 102 102 103 -The openMINDS controlledTerms metadata model contains schemas that ensure consistent registration of well-defined terms, including linkages to existing ontological terms where applicable. 128 +(% class="wikigeneratedid" %) 129 +[[https:~~/~~/github.com/HumanBrainProject/openMINDS_SANDS>>https://github.com/HumanBrainProject/openMINDS_SANDS]] 104 104 131 +=== openMINDS controlledTerms - schemas === 132 + 133 +(% style="text-align: justify;" %) 134 +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: 135 + 136 +(% style="text-align: right;" %) 137 +(% class="small" style="color:#7f8c8d" %)Click on a schema to discover its full HTML description. 138 + 139 +{{container layoutStyle="columns"}} 140 +((( 141 +(% class="small" %) 142 +AgeCategory 143 +AnatomicalAxesOrientation 144 +BehavioralTask 145 +BiologicalSex 146 +CellType 147 +ContributionType 148 +CriteriaQualityType 149 +DatasetType 150 +Disease 151 +DiseaseModel 152 +EthicsAssessment 153 +FileBundleGrouping 154 +FileUsageRole 155 +))) 156 +((( 157 +(% class="small" %) 158 +Genotype 159 +Language 160 +Laterality 161 +MetaDataModelType 162 +Modality 163 +ModelAbstractionLevel 164 +ModelScope 165 +OperatingDevice 166 +OperatingSystem 167 +Organ 168 +Phenotype 169 +PreparationType 170 +ProductAccessibility 171 +))) 172 +((( 173 +(% class="small" %) 174 +ProgrammingLanguage 175 +QualitativeOverlap 176 +SoftwareApplicationCategory 177 +SoftwareFeature 178 +Species 179 +Strain 180 +Technique 181 +TermSuggestion* 182 +Terminology 183 +TissueSampleType 184 +TypeOfUncertainty 185 +UnitOfMeasurement 186 +))) 187 +{{/container}} 188 + 189 +(% style="text-align: justify;" %) 190 +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). 191 + 192 +(% style="text-align: justify;" %) 193 +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). 194 + 195 +(% class="wikigeneratedid" style="text-align: justify;" %) 196 +For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository: 197 + 198 +(% class="wikigeneratedid" %) 199 +[[https:~~/~~/github.com/HumanBrainProject/openMINDS_controlledTerms>>https://github.com/HumanBrainProject/openMINDS_controlledTerms]] 200 + 201 +=== openMINDS controlledTerms - terminologies === 202 + 203 +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: 204 + 205 +(% style="text-align: right;" %) 206 +(% class="small" style="color:#7f8c8d" %)Click on a schema to discover its available instances (including their Knowledge Graph ID). 207 + 208 +{{container layoutStyle="columns"}} 209 +((( 210 +(% class="small" %) 211 +AgeCategory 212 +AnatomicalAxesOrientation 213 +BehavioralTask 214 +BiologicalSex 215 +CellType 216 +ContributionType 217 +CriteriaQualityType 218 +DatasetType 219 +Disease 220 +DiseaseModel 221 +EthicsAssessment 222 +FileBundleGrouping 223 +FileUsageRole 224 +))) 225 +((( 226 +(% class="small" %) 227 +Genotype 228 +Language 229 +Laterality 230 +MetaDataModelType 231 +Modality 232 +ModelAbstractionLevel 233 +ModelScope 234 +OperatingDevice 235 +OperatingSystem 236 +Organ 237 +Phenotype 238 +PreparationType 239 +ProductAccessibility 240 +))) 241 +((( 242 +(% class="small" %) 243 +ProgrammingLanguage 244 +QualitativeOverlap 245 +SoftwareApplicationCategory 246 +SoftwareFeature 247 +Species 248 +Strain 249 +Technique 250 +Terminology 251 +TissueSampleType 252 +TypeOfUncertainty 253 +UnitOfMeasurement 254 +))) 255 +{{/container}} 256 + 105 105 === openMINDS instances === 106 106 107 -xxx 259 +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: 260 + 261 +(% style="text-align: right;" %) 262 +(% class="small" style="color:#7f8c8d" %)Click on a schema to discover its available instances (including their Knowledge Graph ID). 263 + 264 +{{container layoutStyle="columns"}} 265 +((( 266 +(% class="small" %) 267 +contentType 268 +))) 269 +((( 270 +(% class="small" %) 271 +License 272 +))) 273 +((( 274 +(% class="small" %) 275 +DigitalIdentifierSchema 276 +))) 277 +{{/container}} 278 + 279 +(% class="wikigeneratedid" style="text-align: justify;" %) 280 +For details, contributing or reviewing the openMINDS instances please checkout as well the corresponding GitHub repository: 281 + 282 +(% class="wikigeneratedid" %) 283 +[[https:~~/~~/github.com/HumanBrainProject/openMINDS_instances>>https://github.com/HumanBrainProject/openMINDS_instances]]