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Class: Database

An abstract holder for any set of metadata and data. It does not need to correspond to an actual managed database top level holder class. When translated to JSON-Schema this is the 'root' object. It should contain pointers to other objects of interest. For MongoDB, the lists of objects that Database slots point to correspond to collections.

URI: nmdc:Database

biosample_set
*
calibration_set
*
collecting_biosamples_from_site_set
*
configuration_set
*
data_generation_set
*
data_object_set
*
field_research_site_set
*
functional_annotation_agg
*
functional_annotation_set
*
genome_feature_set
*
instrument_set
*
manifest_set
*
material_processing_set
*
processed_sample_set
*
storage_process_set
*
study_set
*
workflow_execution_set
*
Database
biosample_set
calibration_set
collecting_biosamples_from_site_set
configuration_set
data_generation_set
data_object_set
field_research_site_set
functional_annotation_agg
functional_annotation_set
genome_feature_set
instrument_set
manifest_set
material_processing_set
processed_sample_set
storage_process_set
study_set
workflow_execution_set
Biosample
CalibrationInformation
CollectingBiosamplesFromSite
Configuration
DataGeneration
DataObject
FieldResearchSite
FunctionalAnnotationAggMember
FunctionalAnnotation
GenomeFeature
Instrument
Manifest
MaterialProcessing
ProcessedSample
StorageProcess
Study
WorkflowExecution

Slots

Name Cardinality and Range Description Inheritance
biosample_set *
Biosample
This property links a database object to the set of samples within it direct
calibration_set *
CalibrationInformation
This property links a database object to the set of calibrations within it direct
collecting_biosamples_from_site_set *
CollectingBiosamplesFromSite
direct
configuration_set *
Configuration
This property links a database object to the set of configurations within it direct
data_generation_set *
DataGeneration
This property links a database object to the set of data generations within i... direct
data_object_set *
DataObject
This property links a database object to the set of data objects within it direct
field_research_site_set *
FieldResearchSite
direct
functional_annotation_agg *
FunctionalAnnotationAggMember
direct
functional_annotation_set *
FunctionalAnnotation
This property links a database object to the set of all functional annotation... direct
genome_feature_set *
GenomeFeature
This property links a database object to the set of all features direct
instrument_set *
Instrument
This property links a database object to the set of instruments within it direct
manifest_set *
Manifest
This property links a database object to the set of manifests within it direct
material_processing_set *
MaterialProcessing
This property links a database object to the set of material processing withi... direct
processed_sample_set *
ProcessedSample
This property links a database object to the set of processed samples within ... direct
storage_process_set *
StorageProcess
This property links a database object to the set of storage processes within ... direct
study_set *
Study
This property links a database object to the set of studies within it direct
workflow_execution_set *
WorkflowExecution
This property links a database object to the set of workflow executions direct

Aliases

  • NMDC metadata object

Identifier and Mapping Information

Schema Source

Mappings

Mapping Type Mapped Value

LinkML Source

Direct

name: Database
description: An abstract holder for any set of metadata and data. It does not need
  to correspond to an actual managed database top level holder class. When translated
  to JSON-Schema this is the 'root' object. It should contain pointers to other objects
  of interest. For MongoDB, the lists of objects that Database slots point to correspond
  to **collections**.
from_schema: https://w3id.org/nmdc/nmdc
aliases:
- NMDC metadata object
slots:
- biosample_set
- calibration_set
- collecting_biosamples_from_site_set
- configuration_set
- data_generation_set
- data_object_set
- field_research_site_set
- functional_annotation_agg
- functional_annotation_set
- genome_feature_set
- instrument_set
- manifest_set
- material_processing_set
- processed_sample_set
- storage_process_set
- study_set
- workflow_execution_set
class_uri: nmdc:Database
tree_root: true

Induced

name: Database
description: An abstract holder for any set of metadata and data. It does not need
  to correspond to an actual managed database top level holder class. When translated
  to JSON-Schema this is the 'root' object. It should contain pointers to other objects
  of interest. For MongoDB, the lists of objects that Database slots point to correspond
  to **collections**.
from_schema: https://w3id.org/nmdc/nmdc
aliases:
- NMDC metadata object
attributes:
  biosample_set:
    name: biosample_set
    description: This property links a database object to the set of samples within
      it.
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: biosample_set
    owner: Database
    domain_of:
    - Database
    range: Biosample
    multivalued: true
    inlined_as_list: true
  calibration_set:
    name: calibration_set
    description: This property links a database object to the set of calibrations
      within it.
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: calibration_set
    owner: Database
    domain_of:
    - Database
    range: CalibrationInformation
    multivalued: true
    inlined_as_list: true
  collecting_biosamples_from_site_set:
    name: collecting_biosamples_from_site_set
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: collecting_biosamples_from_site_set
    owner: Database
    domain_of:
    - Database
    range: CollectingBiosamplesFromSite
    multivalued: true
    inlined_as_list: true
  configuration_set:
    name: configuration_set
    description: This property links a database object to the set of configurations
      within it.
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: configuration_set
    owner: Database
    domain_of:
    - Database
    range: Configuration
    multivalued: true
    inlined_as_list: true
  data_generation_set:
    name: data_generation_set
    description: This property links a database object to the set of data generations
      within it.
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: data_generation_set
    owner: Database
    domain_of:
    - Database
    range: DataGeneration
    multivalued: true
    inlined_as_list: true
  data_object_set:
    name: data_object_set
    description: This property links a database object to the set of data objects
      within it.
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: data_object_set
    owner: Database
    domain_of:
    - Database
    range: DataObject
    multivalued: true
    inlined_as_list: true
  field_research_site_set:
    name: field_research_site_set
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: field_research_site_set
    owner: Database
    domain_of:
    - Database
    range: FieldResearchSite
    multivalued: true
    inlined_as_list: true
  functional_annotation_agg:
    name: functional_annotation_agg
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    alias: functional_annotation_agg
    owner: Database
    domain_of:
    - Database
    range: FunctionalAnnotationAggMember
    multivalued: true
    inlined: true
    inlined_as_list: true
  functional_annotation_set:
    name: functional_annotation_set
    description: This property links a database object to the set of all functional
      annotations
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: functional_annotation_set
    owner: Database
    domain_of:
    - Database
    range: FunctionalAnnotation
    multivalued: true
    inlined_as_list: true
  genome_feature_set:
    name: genome_feature_set
    description: This property links a database object to the set of all features
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: genome_feature_set
    owner: Database
    domain_of:
    - Database
    range: GenomeFeature
    multivalued: true
    inlined_as_list: true
  instrument_set:
    name: instrument_set
    description: This property links a database object to the set of instruments within
      it.
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: instrument_set
    owner: Database
    domain_of:
    - Database
    range: Instrument
    multivalued: true
    inlined_as_list: true
  manifest_set:
    name: manifest_set
    description: This property links a database object to the set of manifests within
      it.
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: manifest_set
    owner: Database
    domain_of:
    - Database
    range: Manifest
    multivalued: true
    inlined_as_list: true
  material_processing_set:
    name: material_processing_set
    description: This property links a database object to the set of material processing
      within it.
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: material_processing_set
    owner: Database
    domain_of:
    - Database
    range: MaterialProcessing
    multivalued: true
    inlined_as_list: true
  processed_sample_set:
    name: processed_sample_set
    description: This property links a database object to the set of processed samples
      within it.
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: processed_sample_set
    owner: Database
    domain_of:
    - Database
    range: ProcessedSample
    multivalued: true
    inlined_as_list: true
  storage_process_set:
    name: storage_process_set
    description: This property links a database object to the set of storage processes
      within it.
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: storage_process_set
    owner: Database
    domain_of:
    - Database
    range: StorageProcess
    multivalued: true
    inlined_as_list: true
  study_set:
    name: study_set
    description: This property links a database object to the set of studies within
      it.
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: study_set
    owner: Database
    domain_of:
    - Database
    range: Study
    multivalued: true
    inlined_as_list: true
  workflow_execution_set:
    name: workflow_execution_set
    description: This property links a database object to the set of workflow executions.
    from_schema: https://w3id.org/nmdc/nmdc
    rank: 1000
    mixins:
    - object_set
    alias: workflow_execution_set
    owner: Database
    domain_of:
    - Database
    range: WorkflowExecution
    multivalued: true
    inlined_as_list: true
class_uri: nmdc:Database
tree_root: true