Class: atom grouping class (AtomGroupingClass)

A grouping class that classifies atoms. For example, metal atom

URI: chemrof:AtomGroupingClass

 classDiagram
    class AtomGroupingClass
    click AtomGroupingClass href "../AtomGroupingClass"
      ChemicalGroupingClass <|-- AtomGroupingClass
        click ChemicalGroupingClass href "../ChemicalGroupingClass"


      AtomGroupingClass <|-- AtomGroupingByPeriodicTablePlacement
        click AtomGroupingByPeriodicTablePlacement href "../AtomGroupingByPeriodicTablePlacement"
      AtomGroupingClass <|-- AtomGroupingByProperty
        click AtomGroupingByProperty href "../AtomGroupingByProperty"


      AtomGroupingClass : id

      AtomGroupingClass : name

      AtomGroupingClass : owl_subclass_of




    AtomGroupingClass --> "0..1" OwlClass : owl_subclass_of
    click OwlClass href "../OwlClass"


      AtomGroupingClass : subtype_of




    AtomGroupingClass --> "*" MoleculeGroupingClass : subtype_of
    click MoleculeGroupingClass href "../MoleculeGroupingClass"

Inheritance

• GroupingClass [ OwlClass]
  • PhysicochemicalEntityGroupingClass
    • ChemicalGroupingClass [ OwlClass]
      • AtomGroupingClass
        • AtomGroupingByPeriodicTablePlacement
        • AtomGroupingByProperty

Slots

Name	Cardinality and Range	Description	Inheritance
id	1 String		ChemicalGroupingClass, GroupingClass
owl_subclass_of	0..1 OwlClass	Holds between C and P if C owl:subClassOf P	OwlClass
name	0..1 String	name of chemical entity	GroupingClass
subtype_of	* MoleculeGroupingClass	A subtype_of relationship holds between C and P if C is a more specialized fo...	GroupingClass

Identifier and Mapping Information

Schema Source

• from schema: https://w3id.org/chemrof

Mappings

Mapping Type	Mapped Value
self	chemrof:AtomGroupingClass
native	chemrof:AtomGroupingClass

LinkML Source

Direct

name: AtomGroupingClass
description: A grouping class that classifies atoms. For example, metal atom
title: atom grouping class
from_schema: https://w3id.org/chemrof
is_a: ChemicalGroupingClass
slot_usage:
  subtype_of:
    name: subtype_of
    domain_of:
    - GroupingClass
    range: MoleculeGroupingClass
  classifies:
    name: classifies
    range: Atom

Induced

name: AtomGroupingClass
description: A grouping class that classifies atoms. For example, metal atom
title: atom grouping class
from_schema: https://w3id.org/chemrof
is_a: ChemicalGroupingClass
slot_usage:
  subtype_of:
    name: subtype_of
    domain_of:
    - GroupingClass
    range: MoleculeGroupingClass
  classifies:
    name: classifies
    range: Atom
attributes:
  id:
    name: id
    title: id
    from_schema: https://w3id.org/chemrof
    mappings:
    - schema:identifier
    rank: 1000
    is_a: information_property
    identifier: true
    alias: id
    owner: AtomGroupingClass
    domain_of:
    - DomainEntity
    - GroupingClass
    - ChemicalGroupingClass
    range: string
    required: true
  owl_subclass_of:
    name: owl_subclass_of
    description: 'Holds between C and P if C owl:subClassOf P. Note that in this model,
      most classes are metaclasses (see ''owl class''), where these metaclasses may
      represent *groupings* or specific countable elements or species. We provide
      two different sub-properties of subclass of for two cases: (1) subtype_of, which
      connects grouping classes (e.g. alkane is_a hydrocarbon; alpha-amino-acid is_a
      amino-acid), (2) classified_by, which connects a specific element to a grouping
      class (e.g. methane is_a hydrocarbon; iron is_a metal; serine is_a amino-acid)'
    title: owl subclass of
    from_schema: https://w3id.org/chemrof
    aliases:
    - is a
    exact_mappings:
    - rdfs:subClassOf
    narrow_mappings:
    - bo:family
    rank: 1000
    is_a: classification_relationship
    mixin: true
    domain: OwlClass
    alias: owl_subclass_of
    owner: AtomGroupingClass
    domain_of:
    - OwlClass
    range: OwlClass
  name:
    name: name
    description: name of chemical entity. E.g. nickel, carbon-16
    title: name
    from_schema: https://w3id.org/chemrof
    close_mappings:
    - bo:symbol
    rank: 1000
    is_a: information_property
    slot_uri: rdfs:label
    alias: name
    owner: AtomGroupingClass
    domain_of:
    - DomainEntity
    - GroupingClass
    - Atom
    - AtomOccurrence
    range: string
  subtype_of:
    name: subtype_of
    description: A subtype_of relationship holds between C and P if C is a more specialized
      form of P. Here C and P denotes instances of OWL classes, where C and P both
      function as grouping class
    title: subtype of
    from_schema: https://w3id.org/chemrof
    rank: 1000
    is_a: chemical_to_chemical_relationship
    domain: OwlClass
    alias: subtype_of
    owner: AtomGroupingClass
    domain_of:
    - GroupingClass
    range: MoleculeGroupingClass
    required: false
    multivalued: true