Class: Instrument
A material entity that is designed to perform a function in a scientific investigation, but is not a reagent.
URI: nmdc:Instrument
classDiagram
class Instrument
click Instrument href "../Instrument"
MaterialEntity <|-- Instrument
click MaterialEntity href "../MaterialEntity"
Instrument : alternative_identifiers
Instrument : description
Instrument : id
Instrument : model
Instrument --> "0..1" InstrumentModelEnum : model
click InstrumentModelEnum href "../InstrumentModelEnum"
Instrument : name
Instrument : type
Instrument : vendor
Instrument --> "0..1" InstrumentVendorEnum : vendor
click InstrumentVendorEnum href "../InstrumentVendorEnum"
Inheritance
- NamedThing
- MaterialEntity
- Instrument
- MaterialEntity
Slots
Name | Cardinality and Range | Description | Inheritance |
---|---|---|---|
vendor | 0..1 InstrumentVendorEnum |
direct | |
model | 0..1 InstrumentModelEnum |
direct | |
id | 1 Uriorcurie |
A unique identifier for a thing | NamedThing |
name | 0..1 String |
A human readable label for an entity | NamedThing |
description | 0..1 String |
a human-readable description of a thing | NamedThing |
alternative_identifiers | * Uriorcurie |
A list of alternative identifiers for the entity | NamedThing |
type | 1 Uriorcurie |
the class_uri of the class that has been instantiated | NamedThing |
Usages
used by | used in | type | used |
---|---|---|---|
NucleotideSequencing | instrument_used | range | Instrument |
MassSpectrometry | instrument_used | range | Instrument |
Database | instrument_set | range | Instrument |
Pooling | instrument_used | range | Instrument |
Extraction | instrument_used | range | Instrument |
LibraryPreparation | instrument_used | range | Instrument |
SubSamplingProcess | instrument_used | range | Instrument |
MixingProcess | instrument_used | range | Instrument |
FiltrationProcess | instrument_used | range | Instrument |
ChromatographicSeparationProcess | instrument_used | range | Instrument |
DissolvingProcess | instrument_used | range | Instrument |
ChemicalConversionProcess | instrument_used | range | Instrument |
MaterialProcessing | instrument_used | range | Instrument |
DataGeneration | instrument_used | range | Instrument |
Aliases
- device
Identifier and Mapping Information
Schema Source
- from schema: https://w3id.org/nmdc/nmdc
Mappings
Mapping Type | Mapped Value |
---|---|
self | nmdc:Instrument |
native | nmdc:Instrument |
exact | OBI:0000968 |
LinkML Source
Direct
name: Instrument
description: A material entity that is designed to perform a function in a scientific
investigation, but is not a reagent.
from_schema: https://w3id.org/nmdc/nmdc
aliases:
- device
exact_mappings:
- OBI:0000968
is_a: MaterialEntity
slots:
- vendor
- model
slot_usage:
id:
name: id
structured_pattern:
syntax: '{id_nmdc_prefix}:inst-{id_shoulder}-{id_blade}$'
interpolated: true
class_uri: nmdc:Instrument
Induced
name: Instrument
description: A material entity that is designed to perform a function in a scientific
investigation, but is not a reagent.
from_schema: https://w3id.org/nmdc/nmdc
aliases:
- device
exact_mappings:
- OBI:0000968
is_a: MaterialEntity
slot_usage:
id:
name: id
structured_pattern:
syntax: '{id_nmdc_prefix}:inst-{id_shoulder}-{id_blade}$'
interpolated: true
attributes:
vendor:
name: vendor
from_schema: https://w3id.org/nmdc/nmdc
rank: 1000
alias: vendor
owner: Instrument
domain_of:
- Instrument
range: InstrumentVendorEnum
model:
name: model
from_schema: https://w3id.org/nmdc/nmdc
rank: 1000
alias: model
owner: Instrument
domain_of:
- Instrument
range: InstrumentModelEnum
id:
name: id
description: A unique identifier for a thing. Must be either a CURIE shorthand
for a URI or a complete URI
notes:
- 'abstracted pattern: prefix:typecode-authshoulder-blade(.version)?(_seqsuffix)?'
- a minimum length of 3 characters is suggested for typecodes, but 1 or 2 characters
will be accepted
- typecodes must correspond 1:1 to a class in the NMDC schema. this will be checked
via per-class id slot usage assertions
- minting authority shoulders should probably be enumerated and checked in the
pattern
examples:
- value: nmdc:mgmag-00-x012.1_7_c1
description: https://github.com/microbiomedata/nmdc-schema/pull/499#discussion_r1018499248
from_schema: https://w3id.org/nmdc/nmdc
rank: 1000
identifier: true
alias: id
owner: Instrument
domain_of:
- NamedThing
range: uriorcurie
required: true
pattern: ^[a-zA-Z0-9][a-zA-Z0-9_\.]+:[a-zA-Z0-9_][a-zA-Z0-9_\-\/\.,]*$
structured_pattern:
syntax: '{id_nmdc_prefix}:inst-{id_shoulder}-{id_blade}$'
interpolated: true
name:
name: name
description: A human readable label for an entity
from_schema: https://w3id.org/nmdc/nmdc
rank: 1000
alias: name
owner: Instrument
domain_of:
- PersonValue
- NamedThing
- Protocol
range: string
description:
name: description
description: a human-readable description of a thing
from_schema: https://w3id.org/nmdc/nmdc
rank: 1000
slot_uri: dcterms:description
alias: description
owner: Instrument
domain_of:
- ImageValue
- NamedThing
range: string
alternative_identifiers:
name: alternative_identifiers
description: A list of alternative identifiers for the entity.
from_schema: https://w3id.org/nmdc/nmdc
rank: 1000
alias: alternative_identifiers
owner: Instrument
domain_of:
- MetaboliteIdentification
- NamedThing
range: uriorcurie
multivalued: true
pattern: ^[a-zA-Z0-9][a-zA-Z0-9_\.]+:[a-zA-Z0-9_][a-zA-Z0-9_\-\/\.,]*$
type:
name: type
description: the class_uri of the class that has been instantiated
notes:
- replaces legacy nmdc:type slot
- makes it easier to read example data files
- required for polymorphic MongoDB collections
examples:
- value: nmdc:Biosample
- value: nmdc:Study
from_schema: https://w3id.org/nmdc/nmdc
see_also:
- https://github.com/microbiomedata/nmdc-schema/issues/1048
- https://github.com/microbiomedata/nmdc-schema/issues/1233
- https://github.com/microbiomedata/nmdc-schema/issues/248
rank: 1000
slot_uri: rdf:type
designates_type: true
alias: type
owner: Instrument
domain_of:
- EukEval
- FunctionalAnnotationAggMember
- MobilePhaseSegment
- PortionOfSubstance
- MagBin
- MetaboliteIdentification
- PeptideQuantification
- ProteinQuantification
- GenomeFeature
- FunctionalAnnotation
- AttributeValue
- NamedThing
- FailureCategorization
- Protocol
- CreditAssociation
- Doi
range: uriorcurie
required: true
class_uri: nmdc:Instrument