Last modified by lzehl on 2021/07/02 17:06
From version 14.1
edited by lzehl
on 2021/02/22 16:12
Change comment: There is no comment for this version
To version 48.1
edited by lzehl
on 2021/03/17 16:13
Change comment: There is no comment for this version

Summary

Details

Page properties
Content
... ... @@ -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 -Please find the HTML description for all schemas of each openMINDS metadata model in the corresponding sub-pages. A short overview for each openMINDS metadata model can be found below.
7 +A short overview for each openMINDS metadata model can be found below, including links to full HTML descriptions for all schemas and 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.
... ... @@ -13,169 +13,53 @@
13 13  === openMINDS core ===
14 14  
15 15  (% style="text-align: justify;" %)
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:
16 +The openMINDS core metadata model contains schemas that you can use to describe the general origin, resource location, and content of your research products in the field of neuroscience. Currently ( Feb 2021) this metadata model comprises 37 usable schemas, grouped into five classes:
17 17  
18 -{{container layoutStyle="columns"}}
19 -(((
20 -(% class="small" %)
21 -**ACTORS**
22 -Affiliation
23 -ContactInformation
24 -Contribution
25 -Organization
26 -Person
27 -(% class="small" %)
28 -**DATA**
29 -ContentType
30 -Copyright
31 -FileBundle
32 -FileInstance
33 -FileRepository
34 -Hash
35 -License
36 -)))
37 -(((
38 -(% class="small" %)
39 -**MISCELLANEOUS**
40 -DigitalIdentifier
41 -DigitalIdentifierSchema
42 -Funding
43 -QuantitativeValue
44 -QuantitativeValueRange
45 -(% class="small" %)
46 -**PRODUCTS**
47 -Dataset
48 -DatasetVersion
49 -MetaDataModel
50 -MetaDataModelVersion
51 -Model
52 -ModelVersion
53 -Project
54 -Software
55 -SoftwareVersion
56 -)))
57 -(((
58 -(% class="small" %)
59 -**RESEARCH**
60 -ParameterSetting
61 -Protocol
62 -ProtocolExecution
63 -Subject
64 -SubjectGroup
65 -SubjectGroupState
66 -SubjectState
67 -TissueSample
68 -TissueSampleCollection
69 -TissueSampleCollectionState
70 -TissueSampleState
71 -)))
72 -{{/container}}
18 +(% style="text-align: right;" %)
19 +(% class="small" style="color:#7f8c8d" %)Click on a schema to discover its full HTML description.
20 +{{html}}<iframe id="coreFrame" src="https://humanbrainproject.github.io/openMINDS/core.html" width="100%" style="border:0; height: 28em"/>{{/html}}
73 73  
74 74  (% class="wikigeneratedid" style="text-align: justify;" %)
75 -For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
23 +In case of EBRAINS, metadata representations (instances) of a few selected schemas (**##ContentType##**, **##DititalIdentifierSchema##**, **##License##**) are centrally defined and maintained in a library on a separate [[openMINDS instances GitHub>>https://github.com/HumanBrainProject/openMINDS_instances/||rel="noopener noreferrer" target="_blank"]] to guarantee more consistency across the database instances of the EBRAINS Knowledge Graph. Feel free to explore these instances and to use them also outside of the EBRAINS Knowledge Graph.
76 76  
25 +(% class="wikigeneratedid" style="text-align: justify;" %)
26 +For details on, contributing to, or reviewing examples of the openMINDS core metadata model please checkout the dedicated GitHub repository:
27 +
77 77  (% class="wikigeneratedid" %)
78 -[[https:~~/~~/github.com/HumanBrainProject/openMINDS_core>>https://github.com/HumanBrainProject/openMINDS_core]]
29 +[[https:~~/~~/github.com/HumanBrainProject/openMINDS_core>>https://github.com/HumanBrainProject/openMINDS_core||rel="noopener noreferrer" target="_blank"]]
79 79  
80 80  === openMINDS SANDS ===
81 81  
82 82  (% style="text-align: justify;" %)
83 -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:
34 +The openMINDS SANDS (**S**patial **A**nchoring for **N**euroscience **D**ata **S**tructures) metadata model contains schemas that you can use to capture the anatomical location of your 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:
84 84  
85 -{{container layoutStyle="columns"}}
86 -(((
87 -(% class="small" %)
88 -AnatomicalEntity
89 -AnatomicalEntityRelation
90 -Annotation
91 -AtlasTerminology
92 -)))
93 -(((
94 -(% class="small" %)
95 -BrainAtlas
96 -BrainAtlasVersion
97 -CoordinatePoint
98 -CoordinateSpace
99 -)))
100 -(((
101 -(% class="small" %)
102 -Electrode
103 -ElectrodeArray
104 -ElectrodeContact
105 -Image
106 -)))
107 -{{/container}}
36 +(% style="text-align: right;" %)
37 +(% class="small" style="color:#7f8c8d" %)Click on a schema to discover its full HTML description.
38 +{{html}}<iframe src="https://humanbrainproject.github.io/openMINDS/SANDS.html" width="100%" style="border:0; height: 8em"/>{{/html}}
108 108  
109 109  (% class="wikigeneratedid" style="text-align: justify;" %)
110 -For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
41 +For details on, contributing to, or reviewing examples of the openMINDS SANDS metadata model please checkout the dedicated GitHub repository:
111 111  
112 112  (% class="wikigeneratedid" %)
113 113  [[https:~~/~~/github.com/HumanBrainProject/openMINDS_SANDS>>https://github.com/HumanBrainProject/openMINDS_SANDS]]
114 114  
115 -=== openMINDS controlledTerms - schemas ===
46 +=== openMINDS controlledTerms ===
116 116  
117 117  (% style="text-align: justify;" %)
118 118  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:
119 119  
120 -{{container layoutStyle="columns"}}
121 -(((
122 -(% class="small" %)
123 -AgeCategory
124 -AnatomicalAxesOrientation
125 -BehavioralTask
126 -BiologicalSex
127 -CellType
128 -ContributionType
129 -CriteriaQualityType
130 -DatasetType
131 -Disease
132 -DiseaseModel
133 -EthicsAssessment
134 -FileBundleGrouping
135 -FileUsageRole
136 -)))
137 -(((
138 -(% class="small" %)
139 -Genotype
140 -Language
141 -Laterality
142 -MetaDataModelType
143 -Modality
144 -ModelAbstractionLevel
145 -ModelScope
146 -OperatingDevice
147 -OperatingSystem
148 -Organ
149 -Phenotype
150 -PreparationType
151 -ProductAccessibility
152 -)))
153 -(((
154 -(% class="small" %)
155 -ProgrammingLanguage
156 -QualitativeOverlap
157 -SoftwareApplicationCategory
158 -SoftwareFeature
159 -Species
160 -Strain
161 -Technique
162 -TermSuggestion
163 -Terminology
164 -TissueSampleType
165 -TypeOfUncertainty
166 -UnitOfMeasurement
167 -)))
168 -{{/container}}
51 +(% style="text-align: right;" %)
52 +(% class="small" style="color:#7f8c8d" %)Click on a schema to discover its full HTML description.
53 +{{html}}<iframe src="https://humanbrainproject.github.io/openMINDS/controlledTerms.html" width="100%" style="border:0; height: 25em"/>{{/html}}
169 169  
55 +(% class="wikigeneratedid" style="text-align: justify;" %)
56 +Except for **##TermSuggestion##**, the openMINDS controlledTerms metadata schemas differ only in their schema type which defines the terminology to which correspondingly created metadata representations (instances) belong to. In order to guarantee more consistency across the database instances of the EBRAINS Knowledge Graph, instances for all controlled terms are centrally defined and maintained in a library on the openMINDS controlledTerms GitHub under [[**##terminologies/##**>>https://github.com/HumanBrainProject/openMINDS_controlledTerms/tree/v1/terminologies]]. Feel free to explore these instances and to use them also outside of the EBRAINS Knowledge Graph.
57 +
170 170  (% style="text-align: justify;" %)
171 -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.
59 +We expect the list of controlled terms (schema as well as instances) to grow based on your feedback. You can provide this feedback directly through the schema **##TermSuggestion##**. If an important term is missing from our controlled library, this schema provides you with the possibility to define your own term and register it as a suggestion for the controlled library. For this purpose, the **##TermSuggestion##** schema has two more properties (~*~*~#~#"addExistingTerminology"~#~#~*~*, ~*~*~#~#"suggestNewTerminology"~#~#~*~*) where you can state to which terminology the new suggested (not yet controlled) term should belong 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 ontologies (where applicable).
172 172  
173 173  (% class="wikigeneratedid" style="text-align: justify;" %)
174 -For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
62 +For details on, contributing to, or reviewing examples of the openMINDS controlledTerms metadata model please checkout the dedicated GitHub repository:
175 175  
176 176  (% class="wikigeneratedid" %)
177 177  [[https:~~/~~/github.com/HumanBrainProject/openMINDS_controlledTerms>>https://github.com/HumanBrainProject/openMINDS_controlledTerms]]
178 -
179 -=== openMINDS instances ===
180 -
181 -xxx
Public

openMINDS