Last modified by lzehl on 2021/07/02 17:06
From version 10.1
edited by lzehl
on 2021/02/22 11:37
Change comment: There is no comment for this version
To version 19.1
edited by lzehl
on 2021/02/22 17:58
Change comment: There is no comment for this version

Summary

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Content
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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 schema to discover the full HTML view of this schema.
20 +
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
32 +ContentType*
29 29  Copyright
30 30  FileBundle
31 31  FileInstance
32 32  FileRepository
33 33  Hash
34 -License
38 +License*
35 35  )))
36 36  (((
37 37  (% class="small" %)
38 38  **MISCELLANEOUS**
39 39  DigitalIdentifier
40 -DigitalIdentifierSchema
44 +DigitalIdentifierSchema*
41 41  Funding
42 42  QuantitativeValue
43 43  QuantitativeValueRange
... ... @@ -70,14 +70,204 @@
70 70  )))
71 71  {{/container}}
72 72  
77 +(% class="wikigeneratedid" style="text-align: justify;" %)
78 +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).
79 +
80 +(% class="wikigeneratedid" style="text-align: justify;" %)
81 +For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
82 +
83 +(% class="wikigeneratedid" %)
84 +[[https:~~/~~/github.com/HumanBrainProject/openMINDS_core>>https://github.com/HumanBrainProject/openMINDS_core||rel="noopener noreferrer" target="_blank"]]
85 +
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:
88 +(% style="text-align: justify;" %)
89 +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  
77 -=== openMINDS controlledTerms ===
91 +(% style="text-align: right;" %)
92 +(% class="small" style="color:#7f8c8d" %)Click on schema to discover the full HTML view of this schema.
78 78  
79 -The openMINDS controlledTerms metadata model contains schemas that ensure consistent registration of well-defined terms, including linkages to existing ontological terms where applicable.
94 +{{container layoutStyle="columns"}}
95 +(((
96 +(% class="small" %)
97 +AnatomicalEntity
98 +AnatomicalEntityRelation
99 +Annotation
100 +AtlasTerminology
101 +)))
102 +(((
103 +(% class="small" %)
104 +BrainAtlas
105 +BrainAtlasVersion
106 +CoordinatePoint
107 +CoordinateSpace
108 +)))
109 +(((
110 +(% class="small" %)
111 +Electrode
112 +ElectrodeArray
113 +ElectrodeContact
114 +Image
115 +)))
116 +{{/container}}
80 80  
118 +(% class="wikigeneratedid" style="text-align: justify;" %)
119 +For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
120 +
121 +(% class="wikigeneratedid" %)
122 +[[https:~~/~~/github.com/HumanBrainProject/openMINDS_SANDS>>https://github.com/HumanBrainProject/openMINDS_SANDS]]
123 +
124 +=== openMINDS controlledTerms - schemas ===
125 +
126 +(% style="text-align: justify;" %)
127 +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:
128 +
129 +(% style="text-align: right;" %)
130 +(% class="small" style="color:#7f8c8d" %)Click on schema to discover the full HTML view of this schema.
131 +
132 +{{container layoutStyle="columns"}}
133 +(((
134 +(% class="small" %)
135 +AgeCategory
136 +AnatomicalAxesOrientation
137 +BehavioralTask
138 +BiologicalSex
139 +CellType
140 +ContributionType
141 +CriteriaQualityType
142 +DatasetType
143 +Disease
144 +DiseaseModel
145 +EthicsAssessment
146 +FileBundleGrouping
147 +FileUsageRole
148 +)))
149 +(((
150 +(% class="small" %)
151 +Genotype
152 +Language
153 +Laterality
154 +MetaDataModelType
155 +Modality
156 +ModelAbstractionLevel
157 +ModelScope
158 +OperatingDevice
159 +OperatingSystem
160 +Organ
161 +Phenotype
162 +PreparationType
163 +ProductAccessibility
164 +)))
165 +(((
166 +(% class="small" %)
167 +ProgrammingLanguage
168 +QualitativeOverlap
169 +SoftwareApplicationCategory
170 +SoftwareFeature
171 +Species
172 +Strain
173 +Technique
174 +TermSuggestion*
175 +Terminology
176 +TissueSampleType
177 +TypeOfUncertainty
178 +UnitOfMeasurement
179 +)))
180 +{{/container}}
181 +
182 +(% style="text-align: justify;" %)
183 +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).
184 +
185 +(% style="text-align: justify;" %)
186 +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).
187 +
188 +(% class="wikigeneratedid" style="text-align: justify;" %)
189 +For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
190 +
191 +(% class="wikigeneratedid" %)
192 +[[https:~~/~~/github.com/HumanBrainProject/openMINDS_controlledTerms>>https://github.com/HumanBrainProject/openMINDS_controlledTerms]]
193 +
194 +=== openMINDS controlledTerms - terminologies ===
195 +
196 +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:
197 +
198 +(% style="text-align: right;" %)
199 +(% class="small" style="color:#7f8c8d" %)Click on schema to discover the correspondingly, available instances (including their Knowledge Graph ID).
200 +
201 +{{container layoutStyle="columns"}}
202 +(((
203 +(% class="small" %)
204 +AgeCategory
205 +AnatomicalAxesOrientation
206 +BehavioralTask
207 +BiologicalSex
208 +CellType
209 +ContributionType
210 +CriteriaQualityType
211 +DatasetType
212 +Disease
213 +DiseaseModel
214 +EthicsAssessment
215 +FileBundleGrouping
216 +FileUsageRole
217 +)))
218 +(((
219 +(% class="small" %)
220 +Genotype
221 +Language
222 +Laterality
223 +MetaDataModelType
224 +Modality
225 +ModelAbstractionLevel
226 +ModelScope
227 +OperatingDevice
228 +OperatingSystem
229 +Organ
230 +Phenotype
231 +PreparationType
232 +ProductAccessibility
233 +)))
234 +(((
235 +(% class="small" %)
236 +ProgrammingLanguage
237 +QualitativeOverlap
238 +SoftwareApplicationCategory
239 +SoftwareFeature
240 +Species
241 +Strain
242 +Technique
243 +TermSuggestion*
244 +Terminology
245 +TissueSampleType
246 +TypeOfUncertainty
247 +UnitOfMeasurement
248 +)))
249 +{{/container}}
250 +
81 81  === openMINDS instances ===
82 82  
83 -xxx
253 +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:
254 +
255 +(% style="text-align: right;" %)
256 +(% class="small" style="color:#7f8c8d" %)Click on schema to discover the correspondingly, available instances (including their Knowledge Graph ID).
257 +
258 +{{container layoutStyle="columns"}}
259 +(((
260 +(% class="small" %)
261 +contentType
262 +)))
263 +(((
264 +(% class="small" %)
265 +License
266 +)))
267 +(((
268 +(% class="small" %)
269 +DigitalIdentifierSchema
270 +)))
271 +{{/container}}
272 +
273 +(% class="wikigeneratedid" style="text-align: justify;" %)
274 +For details, contributing or reviewing the openMINDS instances please checkout as well the corresponding GitHub repository:
275 +
276 +(% class="wikigeneratedid" %)
277 +[[https:~~/~~/github.com/HumanBrainProject/openMINDS_instances>>https://github.com/HumanBrainProject/openMINDS_instances]]
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openMINDS