User examples
- How many datasets used human subjects?
- Find datasets with male adult subjects
- Find datasets that contain NIfTI files
- Find the software that can be used to open .smr file formats?
Example 1 - How many datasets used human subjects?
Search UI
In the filter function, select "Homo Sapiens" under species. This filters the available datasets in the Knowledge Graph for human subjects only.
https://search.kg.ebrains.eu/?facet_type[0]=Dataset&facet_Dataset_speciesFilter[0]=Homo%20sapiens
Query Builder
Example 2 - Find datasets with male adult subjects
Search UI
All the metadata in the knowledge graph is represented by nodes and their relationships by the edges. Most of the "basic" metadata is visualised in the Search UI to make it easy for the user to find datasets that fit certain criteria without needing to know how to navigate and traverse a graph structure.
Query Builder
"@context": {
"@vocab": "https://core.kg.ebrains.eu/vocab/query/",
"query": "https://schema.hbp.eu/myQuery/",
"propertyName": {
"@id": "propertyName",
"@type": "@id"
},
"path": {
"@id": "path",
"@type": "@id"
}
},
"meta": {
"type": "https://openminds.ebrains.eu/core/DatasetVersion",
"responseVocab": "https://schema.hbp.eu/myQuery/"
},
"structure": [
{
"propertyName": "query:id",
"path": "@id"
},
{
"propertyName": "query:shortName",
"path": "https://openminds.ebrains.eu/vocab/shortName"
},
{
"propertyName": "query:studiedSpecimen",
"path": "https://openminds.ebrains.eu/vocab/studiedSpecimen",
"required": true,
"structure": [
{
"propertyName": "query:id",
"path": "@id"
},
{
"propertyName": "query:biologicalSex",
"path": "https://openminds.ebrains.eu/vocab/biologicalSex",
"required": true,
"structure": {
"propertyName": "query:name",
"path": "https://openminds.ebrains.eu/vocab/name",
"required": true,
"filter": {
"op": "EQUALS",
"value": "male"
}
}
},
{
"propertyName": "query:studiedState",
"path": "https://openminds.ebrains.eu/vocab/studiedState",
"required": true,
"structure": {
"propertyName": "query:ageCategory",
"path": "https://openminds.ebrains.eu/vocab/ageCategory",
"required": true,
"structure": {
"propertyName": "query:name",
"path": "https://openminds.ebrains.eu/vocab/name",
"required": true,
"filter": {
"op": "EQUALS",
"value": "adult"
}
}
}
}
]
}
]
}
Example 3 - Find datasets that contain NIfTI files
Search UI
Files are organised based on their file format (i.e. file extension) and the software that could be used to open these files. In openMINDS this is captured with the content type. In the filter function, select "application/vnd.nifti.1" under content types to select all the dataset with a NIfTI 1 file format.
Query Builder
"@context": {
"@vocab": "https://core.kg.ebrains.eu/vocab/query/",
"query": "https://schema.hbp.eu/myQuery/",
"propertyName": {
"@id": "propertyName",
"@type": "@id"
},
"path": {
"@id": "path",
"@type": "@id"
}
},
"meta": {
"type": "https://openminds.ebrains.eu/core/DatasetVersion",
"responseVocab": "https://schema.hbp.eu/myQuery/"
},
"structure": [
{
"propertyName": "query:shortName",
"path": "https://openminds.ebrains.eu/vocab/shortName"
},
{
"propertyName": "query:id",
"path": "@id"
},
{
"propertyName": "query:repository",
"path": "https://openminds.ebrains.eu/vocab/repository",
"required": true,
"structure": {
"propertyName": "query:fileRepository",
"path": {
"@id": "https://openminds.ebrains.eu/vocab/fileRepository",
"reverse": true
},
"required": true,
"structure": {
"propertyName": "query:name",
"path": "https://openminds.ebrains.eu/vocab/name",
"required": true,
"filter": {
"op": "ENDS_WITH",
"value": ".nii.gz"
}
}
}
}
]
}