Last modified by lzehl on 2021/07/02 17:06
From version 32.1
edited by lzehl
on 2021/02/24 11:31
Change comment: There is no comment for this version
To version 11.1
edited by lzehl
on 2021/02/22 15:22
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 -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.
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.
8 8  
9 9  (% style="text-align: justify;" %)
10 10  Note that all metadata models are licensed under the MIT license.
... ... @@ -12,138 +12,96 @@
12 12  
13 13  === openMINDS core ===
14 14  
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 -{{html}}<iframe src="https://humanbrainproject.github.io/openMINDS/core.html" width="100%" style="border:0; height: 28em"/>{{/html}}
21 -
22 -(% class="wikigeneratedid" style="text-align: justify;" %)
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).
24 -
25 -(% class="wikigeneratedid" style="text-align: justify;" %)
26 -For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
27 -
28 -(% class="wikigeneratedid" %)
29 -[[https:~~/~~/github.com/HumanBrainProject/openMINDS_core>>https://github.com/HumanBrainProject/openMINDS_core||rel="noopener noreferrer" target="_blank"]]
30 -
31 -=== openMINDS SANDS ===
32 -
33 -(% style="text-align: justify;" %)
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:
35 -
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}}
39 -
40 -(% class="wikigeneratedid" style="text-align: justify;" %)
41 -For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
42 -
43 -(% class="wikigeneratedid" %)
44 -[[https:~~/~~/github.com/HumanBrainProject/openMINDS_SANDS>>https://github.com/HumanBrainProject/openMINDS_SANDS]]
45 -
46 -=== openMINDS controlledTerms - schemas ===
47 -
48 -(% style="text-align: justify;" %)
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:
50 -
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}}
54 -
55 -(% style="text-align: justify;" %)
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).
57 -
58 -(% style="text-align: justify;" %)
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).
60 -
61 -(% class="wikigeneratedid" style="text-align: justify;" %)
62 -For details, contributing or reviewing examples please checkout as well the corresponding GitHub repository:
63 -
64 -(% class="wikigeneratedid" %)
65 -[[https:~~/~~/github.com/HumanBrainProject/openMINDS_controlledTerms>>https://github.com/HumanBrainProject/openMINDS_controlledTerms]]
66 -
67 -=== openMINDS controlledTerms - terminologies ===
68 -
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:
70 -
71 -(% style="text-align: right;" %)
72 -(% class="small" style="color:#7f8c8d" %)//**Coming soon:** //Click on a schema to discover its available instances.
73 -
74 74  {{container layoutStyle="columns"}}
75 75  (((
76 76  (% class="small" %)
77 -AgeCategory
78 -AnatomicalAxesOrientation
79 -BehavioralTask
80 -BiologicalSex
81 -CellType
82 -ContributionType
83 -CriteriaQualityType
84 -DatasetType
85 -Disease
86 -DiseaseModel
87 -EthicsAssessment
88 -FileBundleGrouping
89 -FileUsageRole
20 +**ACTORS**
21 +Affiliation
22 +ContactInformation
23 +Contribution
24 +Organization
25 +Person
26 +(% class="small" %)
27 +**DATA**
28 +ContentType
29 +Copyright
30 +FileBundle
31 +FileInstance
32 +FileRepository
33 +Hash
34 +License
90 90  )))
91 91  (((
92 92  (% class="small" %)
93 -Genotype
94 -Language
95 -Laterality
96 -MetaDataModelType
97 -Modality
98 -ModelAbstractionLevel
99 -ModelScope
100 -OperatingDevice
101 -OperatingSystem
102 -Organ
103 -Phenotype
104 -PreparationType
105 -ProductAccessibility
38 +**MISCELLANEOUS**
39 +DigitalIdentifier
40 +DigitalIdentifierSchema
41 +Funding
42 +QuantitativeValue
43 +QuantitativeValueRange
44 +(% class="small" %)
45 +**PRODUCTS**
46 +Dataset
47 +DatasetVersion
48 +MetaDataModel
49 +MetaDataModelVersion
50 +Model
51 +ModelVersion
52 +Project
53 +Software
54 +SoftwareVersion
106 106  )))
107 107  (((
108 108  (% class="small" %)
109 -ProgrammingLanguage
110 -QualitativeOverlap
111 -SoftwareApplicationCategory
112 -SoftwareFeature
113 -Species
114 -Strain
115 -Technique
116 -Terminology
117 -TissueSampleType
118 -TypeOfUncertainty
119 -UnitOfMeasurement
58 +**RESEARCH**
59 +ParameterSetting
60 +Protocol
61 +ProtocolExecution
62 +Subject
63 +SubjectGroup
64 +SubjectGroupState
65 +SubjectState
66 +TissueSample
67 +TissueSampleCollection
68 +TissueSampleCollectionState
69 +TissueSampleState
120 120  )))
121 121  {{/container}}
122 122  
123 -=== openMINDS instances ===
73 +=== openMINDS SANDS ===
124 124  
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:
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:
126 126  
127 -(% style="text-align: right;" %)
128 -(% class="small" style="color:#7f8c8d" %)//**Coming soon:**// Click on a schema to discover its available instances.
129 -
130 130  {{container layoutStyle="columns"}}
131 131  (((
132 132  (% class="small" %)
133 -contentType
80 +AnatomicalEntity
81 +AnatomicalEntityRelation
82 +Annotation
83 +AtlasTerminology
134 134  )))
135 135  (((
136 136  (% class="small" %)
137 -License
87 +BrainAtlas
88 +BrainAtlasVersion
89 +CoordinatePoint
90 +CoordinateSpace
138 138  )))
139 139  (((
140 140  (% class="small" %)
141 -DigitalIdentifierSchema
94 +Electrode
95 +ElectrodeArray
96 +ElectrodeContact
97 +Image
142 142  )))
143 143  {{/container}}
144 144  
145 -(% class="wikigeneratedid" style="text-align: justify;" %)
146 -For details, contributing or reviewing the openMINDS instances please checkout as well the corresponding GitHub repository:
101 +=== openMINDS controlledTerms ===
147 147  
148 -(% class="wikigeneratedid" %)
149 -[[https:~~/~~/github.com/HumanBrainProject/openMINDS_instances>>https://github.com/HumanBrainProject/openMINDS_instances]]
103 +The openMINDS controlledTerms metadata model contains schemas that ensure consistent registration of well-defined terms, including linkages to existing ontological terms where applicable.
104 +
105 +=== openMINDS instances ===
106 +
107 +xxx
Public

openMINDS