Skip to content

Class: FunctionalAnnotationAggMemberFlat

This class is used to store aggregated results from workflows which produce functional annotations such as metaproteomics and metagenomics. Flattened tabular form of 'FunctionalAnnotationAggMember'. Attributes are the union of base-class slots and slots from concrete subclasses of 'FunctionalAnnotationAggMember' that may appear via the 'type' field.

URI: https://w3id.org/nmdc/nmdc-schema-flattened/FunctionalAnnotationAggMemberFlat

 classDiagram
    class FunctionalAnnotationAggMemberFlat
    click FunctionalAnnotationAggMemberFlat href "../FunctionalAnnotationAggMemberFlat/"
      FunctionalAnnotationAggMemberFlat : count

      FunctionalAnnotationAggMemberFlat : gene_function_id

      FunctionalAnnotationAggMemberFlat : type

      FunctionalAnnotationAggMemberFlat : was_generated_by

Slots

Name Cardinality and Range Description Inheritance
count 1
Integer		 The number of sequences (for a metagenome or metatranscriptome) or spectra (f... direct
gene_function_id 1
Uriorcurie		 The identifier for the gene function direct
type 1
Uriorcurie		 the class_uri of the class that has been instantiated direct
was_generated_by 1
String		 Reference by identifier; original range was class 'AnnotatingWorkflow' direct

Identifier and Mapping Information

Annotations

property value
table_name functional_annotation_agg
source_class FunctionalAnnotationAggMember

Schema Source

Mappings

Mapping Type Mapped Value
self https://w3id.org/nmdc/nmdc-schema-flattened/FunctionalAnnotationAggMemberFlat
native https://w3id.org/nmdc/nmdc-schema-flattened/FunctionalAnnotationAggMemberFlat

LinkML Source

Direct

name: FunctionalAnnotationAggMemberFlat
annotations:
  table_name:
    tag: table_name
    value: functional_annotation_agg
  source_class:
    tag: source_class
    value: FunctionalAnnotationAggMember
description: This class is used to store aggregated results from workflows which produce
  functional annotations such as metaproteomics and metagenomics. Flattened tabular
  form of 'FunctionalAnnotationAggMember'. Attributes are the union of base-class
  slots and slots from concrete subclasses of 'FunctionalAnnotationAggMember' that
  may appear via the 'type' field.
from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
attributes:
  count:
    name: count
    description: The number of sequences (for a metagenome or metatranscriptome) or
      spectra (for metaproteomics) associated with the specified function.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    rank: 1000
    domain_of:
    - FunctionalAnnotationAggMemberFlat
    range: integer
    required: true
    multivalued: false
  gene_function_id:
    name: gene_function_id
    description: The identifier for the gene function.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    rank: 1000
    domain_of:
    - FunctionalAnnotationAggMemberFlat
    range: uriorcurie
    required: true
    multivalued: false
  type:
    name: type
    description: the class_uri of the class that has been instantiated
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - BiosampleFlat
    - biosample_set_agrochem_addition
    - biosample_set_air_temp_regm
    - biosample_set_antibiotic_regm
    - biosample_set_atmospheric_data
    - biosample_set_biomass
    - biosample_set_chem_administration
    - biosample_set_chem_mutagen
    - biosample_set_climate_environment
    - biosample_set_diether_lipids
    - biosample_set_emulsions
    - biosample_set_fertilizer_regm
    - biosample_set_fungicide_regm
    - biosample_set_gaseous_environment
    - biosample_set_gaseous_substances
    - biosample_set_gravity
    - biosample_set_growth_hormone_regm
    - biosample_set_heavy_metals
    - biosample_set_herbicide_regm
    - biosample_set_host_diet
    - biosample_set_humidity_regm
    - biosample_set_inorg_particles
    - biosample_set_mineral_nutr_regm
    - biosample_set_misc_param
    - biosample_set_n_alkanes
    - biosample_set_org_particles
    - biosample_set_organism_count
    - biosample_set_particle_class
    - biosample_set_perturbation
    - biosample_set_pesticide_regm
    - biosample_set_ph_regm
    - biosample_set_phaeopigments
    - biosample_set_phosplipid_fatt_acid
    - biosample_set_pollutants
    - biosample_set_radiation_regm
    - biosample_set_rainfall_regm
    - biosample_set_salt_regm
    - biosample_set_season_environment
    - biosample_set_soluble_inorg_mat
    - biosample_set_soluble_org_mat
    - biosample_set_standing_water_regm
    - biosample_set_suspend_solids
    - biosample_set_volatile_org_comp
    - biosample_set_water_temp_regm
    - biosample_set_watering_regm
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - collecting_biosamples_from_site_set_has_failure_categorization
    - ConfigurationFlat
    - configuration_set_ordered_mobile_phases
    - DataGenerationFlat
    - data_generation_set_has_failure_categorization
    - DataObjectFlat
    - FieldResearchSiteFlat
    - FunctionalAnnotationAggMemberFlat
    - FunctionalAnnotationFlat
    - GenomeFeatureFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - material_processing_set_has_failure_categorization
    - material_processing_set_ordered_mobile_phases
    - material_processing_set_substances_used
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - storage_process_set_has_failure_categorization
    - storage_process_set_substances_used
    - StudyFlat
    - study_set_associated_dois
    - study_set_has_credit_associations
    - study_set_protocol_link
    - study_set_study_image
    - WorkflowExecutionFlat
    - workflow_execution_set_has_failure_categorization
    - workflow_execution_set_has_metabolite_identifications
    - workflow_execution_set_mags_list
    range: uriorcurie
    required: true
    multivalued: false
  was_generated_by:
    name: was_generated_by
    description: Reference by identifier; original range was class 'AnnotatingWorkflow'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    domain_of:
    - DataObjectFlat
    - FunctionalAnnotationAggMemberFlat
    - FunctionalAnnotationFlat
    range: string
    required: true
    multivalued: false

Induced

name: FunctionalAnnotationAggMemberFlat
annotations:
  table_name:
    tag: table_name
    value: functional_annotation_agg
  source_class:
    tag: source_class
    value: FunctionalAnnotationAggMember
description: This class is used to store aggregated results from workflows which produce
  functional annotations such as metaproteomics and metagenomics. Flattened tabular
  form of 'FunctionalAnnotationAggMember'. Attributes are the union of base-class
  slots and slots from concrete subclasses of 'FunctionalAnnotationAggMember' that
  may appear via the 'type' field.
from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
attributes:
  count:
    name: count
    description: The number of sequences (for a metagenome or metatranscriptome) or
      spectra (for metaproteomics) associated with the specified function.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    rank: 1000
    owner: FunctionalAnnotationAggMemberFlat
    domain_of:
    - FunctionalAnnotationAggMemberFlat
    range: integer
    required: true
    multivalued: false
  gene_function_id:
    name: gene_function_id
    description: The identifier for the gene function.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    rank: 1000
    owner: FunctionalAnnotationAggMemberFlat
    domain_of:
    - FunctionalAnnotationAggMemberFlat
    range: uriorcurie
    required: true
    multivalued: false
  type:
    name: type
    description: the class_uri of the class that has been instantiated
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: FunctionalAnnotationAggMemberFlat
    domain_of:
    - BiosampleFlat
    - biosample_set_agrochem_addition
    - biosample_set_air_temp_regm
    - biosample_set_antibiotic_regm
    - biosample_set_atmospheric_data
    - biosample_set_biomass
    - biosample_set_chem_administration
    - biosample_set_chem_mutagen
    - biosample_set_climate_environment
    - biosample_set_diether_lipids
    - biosample_set_emulsions
    - biosample_set_fertilizer_regm
    - biosample_set_fungicide_regm
    - biosample_set_gaseous_environment
    - biosample_set_gaseous_substances
    - biosample_set_gravity
    - biosample_set_growth_hormone_regm
    - biosample_set_heavy_metals
    - biosample_set_herbicide_regm
    - biosample_set_host_diet
    - biosample_set_humidity_regm
    - biosample_set_inorg_particles
    - biosample_set_mineral_nutr_regm
    - biosample_set_misc_param
    - biosample_set_n_alkanes
    - biosample_set_org_particles
    - biosample_set_organism_count
    - biosample_set_particle_class
    - biosample_set_perturbation
    - biosample_set_pesticide_regm
    - biosample_set_ph_regm
    - biosample_set_phaeopigments
    - biosample_set_phosplipid_fatt_acid
    - biosample_set_pollutants
    - biosample_set_radiation_regm
    - biosample_set_rainfall_regm
    - biosample_set_salt_regm
    - biosample_set_season_environment
    - biosample_set_soluble_inorg_mat
    - biosample_set_soluble_org_mat
    - biosample_set_standing_water_regm
    - biosample_set_suspend_solids
    - biosample_set_volatile_org_comp
    - biosample_set_water_temp_regm
    - biosample_set_watering_regm
    - CalibrationInformationFlat
    - CollectingBiosamplesFromSiteFlat
    - collecting_biosamples_from_site_set_has_failure_categorization
    - ConfigurationFlat
    - configuration_set_ordered_mobile_phases
    - DataGenerationFlat
    - data_generation_set_has_failure_categorization
    - DataObjectFlat
    - FieldResearchSiteFlat
    - FunctionalAnnotationAggMemberFlat
    - FunctionalAnnotationFlat
    - GenomeFeatureFlat
    - InstrumentFlat
    - ManifestFlat
    - MaterialProcessingFlat
    - material_processing_set_has_failure_categorization
    - material_processing_set_ordered_mobile_phases
    - material_processing_set_substances_used
    - OrganismSampleFlat
    - OrganismFlat
    - organism_set_classified_as
    - ProcessedSampleFlat
    - StorageProcessFlat
    - storage_process_set_has_failure_categorization
    - storage_process_set_substances_used
    - StudyFlat
    - study_set_associated_dois
    - study_set_has_credit_associations
    - study_set_protocol_link
    - study_set_study_image
    - WorkflowExecutionFlat
    - workflow_execution_set_has_failure_categorization
    - workflow_execution_set_has_metabolite_identifications
    - workflow_execution_set_mags_list
    range: uriorcurie
    required: true
    multivalued: false
  was_generated_by:
    name: was_generated_by
    description: Reference by identifier; original range was class 'AnnotatingWorkflow'.
    from_schema: https://w3id.org/nmdc/nmdc-schema-flattened
    owner: FunctionalAnnotationAggMemberFlat
    domain_of:
    - DataObjectFlat
    - FunctionalAnnotationAggMemberFlat
    - FunctionalAnnotationFlat
    range: string
    required: true
    multivalued: false