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Class: MicrobiomeAnalysis

Microbiome composition analysis

URI: outcomes_model:MicrobiomeAnalysis

classDiagram class MicrobiomeAnalysis click MicrobiomeAnalysis href "../MicrobiomeAnalysis/" NamedEntity <|-- MicrobiomeAnalysis click NamedEntity href "../NamedEntity/" MicrobiomeAnalysis : alpha_diversity MicrobiomeAnalysis --> "0..1" QuantityValue : alpha_diversity click QuantityValue href "../QuantityValue/" MicrobiomeAnalysis : beta_diversity MicrobiomeAnalysis : description MicrobiomeAnalysis : dna_extraction_method MicrobiomeAnalysis : id MicrobiomeAnalysis : sequencing_primers MicrobiomeAnalysis : taxonomic_abundance

Inheritance

Slots

Name Cardinality and Range Description Inheritance
alpha_diversity 0..1
QuantityValue		 Alpha diversity metric direct
beta_diversity 0..1
String		 Beta diversity metric direct
taxonomic_abundance *
String		 Taxonomic abundance data direct
sequencing_primers *
String		 Primers used for sequencing (16S, ITS) direct
dna_extraction_method 0..1
String		 Method for DNA extraction direct
id 1
Uriorcurie		 A unique identifier NamedEntity
description 0..1
String		 A detailed description NamedEntity

Usages

used by used in type used
BALFSputumMeasurement microbiome_analysis range MicrobiomeAnalysis

Identifier and Mapping Information

Schema Source

  • from schema: https://w3id.org/EHS-Data-Standards/outcomes-model

Mappings

Mapping Type Mapped Value
self outcomes_model:MicrobiomeAnalysis
native outcomes_model:MicrobiomeAnalysis

LinkML Source

Direct

name: MicrobiomeAnalysis
description: Microbiome composition analysis
from_schema: https://w3id.org/EHS-Data-Standards/outcomes-model
is_a: NamedEntity
slots:
- alpha_diversity
- beta_diversity
- taxonomic_abundance
- sequencing_primers
- dna_extraction_method

Induced

name: MicrobiomeAnalysis
description: Microbiome composition analysis
from_schema: https://w3id.org/EHS-Data-Standards/outcomes-model
is_a: NamedEntity
attributes:
  alpha_diversity:
    name: alpha_diversity
    description: Alpha diversity metric
    from_schema: https://w3id.org/EHS-Data-Standards/outcomes-model
    rank: 1000
    alias: alpha_diversity
    owner: MicrobiomeAnalysis
    domain_of:
    - MicrobiomeAnalysis
    range: QuantityValue
    inlined: true
  beta_diversity:
    name: beta_diversity
    description: Beta diversity metric
    from_schema: https://w3id.org/EHS-Data-Standards/outcomes-model
    rank: 1000
    alias: beta_diversity
    owner: MicrobiomeAnalysis
    domain_of:
    - MicrobiomeAnalysis
    range: string
  taxonomic_abundance:
    name: taxonomic_abundance
    description: Taxonomic abundance data
    from_schema: https://w3id.org/EHS-Data-Standards/outcomes-model
    rank: 1000
    alias: taxonomic_abundance
    owner: MicrobiomeAnalysis
    domain_of:
    - MicrobiomeAnalysis
    range: string
    multivalued: true
  sequencing_primers:
    name: sequencing_primers
    description: Primers used for sequencing (16S, ITS)
    from_schema: https://w3id.org/EHS-Data-Standards/outcomes-model
    rank: 1000
    alias: sequencing_primers
    owner: MicrobiomeAnalysis
    domain_of:
    - MicrobiomeAnalysis
    range: string
    multivalued: true
  dna_extraction_method:
    name: dna_extraction_method
    description: Method for DNA extraction
    from_schema: https://w3id.org/EHS-Data-Standards/outcomes-model
    rank: 1000
    alias: dna_extraction_method
    owner: MicrobiomeAnalysis
    domain_of:
    - MicrobiomeAnalysis
    range: string
  id:
    name: id
    description: A unique identifier
    from_schema: https://w3id.org/EHS-Data-Standards/outcomes-model
    rank: 1000
    identifier: true
    alias: id
    owner: MicrobiomeAnalysis
    domain_of:
    - NamedEntity
    range: uriorcurie
    required: true
  description:
    name: description
    description: A detailed description
    from_schema: https://w3id.org/EHS-Data-Standards/outcomes-model
    rank: 1000
    alias: description
    owner: MicrobiomeAnalysis
    domain_of:
    - NamedEntity
    range: string