name: koza-graph-schema
id: https://w3id.org/monarch-initiative/koza/graph-schema
imports:
- linkml:types
prefixes:
  dct: http://purl.org/dc/terms/
  linkml: https://w3id.org/linkml/
  biolink: https://w3id.org/biolink/vocab/
  rdf: http://www.w3.org/1999/02/22-rdf-syntax-ns#
  rdfs: http://www.w3.org/2000/01/rdf-schema#
default_prefix: https://w3id.org/monarch-initiative/koza/graph-schema/
default_range: string
slots:
  file_source:
    description: Source file stem injected by koza at load time.
    range: string
    multivalued: false
  provided_by:
    description: Source file stem injected by koza at load time (KGX convention).
    range: string
    multivalued: false
  id:
    exact_mappings:
    - biolink:id
    slot_uri: biolink:id
  category:
    exact_mappings:
    - biolink:category
    slot_uri: biolink:category
    range: uriorcurie
  name:
    exact_mappings:
    - biolink:name
    slot_uri: rdfs:label
    range: string
  synonym:
    exact_mappings:
    - biolink:synonym
    slot_uri: biolink:synonym
    range: string
    multivalued: true
  full_name:
    exact_mappings:
    - biolink:full_name
    slot_uri: biolink:full_name
    range: string
  in_taxon:
    exact_mappings:
    - biolink:in_taxon
    slot_uri: biolink:in_taxon
    range: uriorcurie
  in_taxon_label:
    exact_mappings:
    - biolink:in_taxon_label
    slot_uri: biolink:in_taxon_label
    range: string
  symbol:
    exact_mappings:
    - biolink:symbol
    slot_uri: biolink:symbol
  xref:
    exact_mappings:
    - biolink:xref
    slot_uri: biolink:xref
    range: uriorcurie
    multivalued: true
  type:
    exact_mappings:
    - biolink:type
    slot_uri: rdf:type
  has_gene:
    exact_mappings:
    - biolink:has_gene
    slot_uri: biolink:has_gene
    range: uriorcurie
    multivalued: true
  iri:
    exact_mappings:
    - biolink:iri
    slot_uri: biolink:iri
    range: uriorcurie
  description:
    exact_mappings:
    - biolink:description
    slot_uri: dct:description
    range: string
  has_attribute:
    exact_mappings:
    - biolink:has_attribute
    slot_uri: biolink:has_attribute
    range: uriorcurie
    multivalued: true
  has_biological_sex:
    exact_mappings:
    - biolink:has_biological_sex
    slot_uri: biolink:has_biological_sex
    range: uriorcurie
  deprecated:
    exact_mappings:
    - biolink:deprecated
    slot_uri: biolink:deprecated
    range: boolean
  exact_synonym:
    exact_mappings:
    - biolink:exact_synonym
    slot_uri: biolink:exact_synonym
    multivalued: true
  broad_synonym:
    exact_mappings:
    - biolink:broad_synonym
    slot_uri: biolink:broad_synonym
    multivalued: true
  narrow_synonym:
    exact_mappings:
    - biolink:narrow_synonym
    slot_uri: biolink:narrow_synonym
    multivalued: true
  related_synonym:
    exact_mappings:
    - biolink:related_synonym
    slot_uri: biolink:related_synonym
    multivalued: true
  subsets:
    exact_mappings:
    - biolink:subsets
    slot_uri: biolink:subsets
    range: string
    multivalued: true
  same_as:
    multivalued: true
  synonyms: {}
  subject:
    exact_mappings:
    - biolink:subject
    slot_uri: rdf:subject
    range: uriorcurie
  predicate:
    exact_mappings:
    - biolink:predicate
    slot_uri: rdf:predicate
    range: uriorcurie
  object:
    exact_mappings:
    - biolink:object
    slot_uri: rdf:object
    range: uriorcurie
  agent_type:
    exact_mappings:
    - biolink:agent_type
    slot_uri: biolink:agent_type
    range: string
  aggregator_knowledge_source:
    exact_mappings:
    - biolink:aggregator_knowledge_source
    slot_uri: biolink:aggregator_knowledge_source
    multivalued: true
  knowledge_level:
    exact_mappings:
    - biolink:knowledge_level
    slot_uri: biolink:knowledge_level
    range: string
  primary_knowledge_source:
    exact_mappings:
    - biolink:primary_knowledge_source
    slot_uri: biolink:primary_knowledge_source
  FDA_adverse_event_level:
    exact_mappings:
    - biolink:FDA_adverse_event_level
    slot_uri: biolink:FDA_adverse_event_level
    range: string
  disease_context_qualifier:
    exact_mappings:
    - biolink:disease_context_qualifier
    slot_uri: biolink:disease_context_qualifier
    range: uriorcurie
  publications:
    exact_mappings:
    - biolink:publications
    slot_uri: biolink:publications
    range: uriorcurie
    multivalued: true
  qualifiers:
    exact_mappings:
    - biolink:qualifiers
    slot_uri: biolink:qualifiers
    range: uriorcurie
    multivalued: true
  has_evidence:
    exact_mappings:
    - biolink:has_evidence
    slot_uri: biolink:has_evidence
    range: uriorcurie
    multivalued: true
  original_predicate:
    exact_mappings:
    - biolink:original_predicate
    slot_uri: biolink:original_predicate
    range: uriorcurie
  frequency_qualifier:
    exact_mappings:
    - biolink:frequency_qualifier
    slot_uri: biolink:frequency_qualifier
    range: string
  has_count:
    exact_mappings:
    - biolink:has_count
    slot_uri: biolink:has_count
    range: integer
  has_percentage:
    exact_mappings:
    - biolink:has_percentage
    slot_uri: biolink:has_percentage
    range: double
  has_quotient:
    exact_mappings:
    - biolink:has_quotient
    slot_uri: biolink:has_quotient
    range: double
  has_total:
    exact_mappings:
    - biolink:has_total
    slot_uri: biolink:has_total
    range: integer
  negated:
    exact_mappings:
    - biolink:negated
    slot_uri: biolink:negated
    range: boolean
  onset_qualifier:
    exact_mappings:
    - biolink:onset_qualifier
    slot_uri: biolink:onset_qualifier
    range: uriorcurie
  sex_qualifier:
    exact_mappings:
    - biolink:sex_qualifier
    slot_uri: biolink:sex_qualifier
    range: uriorcurie
  object_category:
    exact_mappings:
    - biolink:object_category
    slot_uri: biolink:object_category
    range: uriorcurie
  subject_category:
    exact_mappings:
    - biolink:subject_category
    slot_uri: biolink:subject_category
    range: uriorcurie
  object_aspect_qualifier:
    exact_mappings:
    - biolink:object_aspect_qualifier
    slot_uri: biolink:object_aspect_qualifier
    range: string
  sources:
    exact_mappings:
    - biolink:sources
    slot_uri: biolink:sources
    range: uriorcurie
    multivalued: true
  supporting_text:
    exact_mappings:
    - biolink:supporting_text
    slot_uri: biolink:supporting_text
    range: string
    multivalued: true
  original_object:
    exact_mappings:
    - biolink:original_object
    slot_uri: biolink:original_object
  original_subject:
    exact_mappings:
    - biolink:original_subject
    slot_uri: biolink:original_subject
  species_context_qualifier:
    exact_mappings:
    - biolink:species_context_qualifier
    slot_uri: biolink:species_context_qualifier
    range: uriorcurie
  stage_qualifier:
    exact_mappings:
    - biolink:stage_qualifier
    slot_uri: biolink:stage_qualifier
    range: uriorcurie
  qualifier:
    exact_mappings:
    - biolink:qualifier
    slot_uri: biolink:qualifier
  object_specialization_qualifier:
    exact_mappings:
    - biolink:object_specialization_qualifier
    slot_uri: biolink:object_specialization_qualifier
    range: uriorcurie
  namespace: {}
  has_phenotype:
    multivalued: true
  has_phenotype_label:
    multivalued: true
  has_phenotype_count:
    range: integer
  has_phenotype_closure:
    multivalued: true
  has_phenotype_closure_label:
    multivalued: true
  has_descendant:
    multivalued: true
  has_descendant_label:
    multivalued: true
  has_descendant_count:
    range: integer
  evidence_count:
    range: integer
  grouping_key: {}
  subject_label: {}
  subject_namespace: {}
  subject_closure:
    multivalued: true
  subject_closure_label:
    multivalued: true
  subject_taxon: {}
  subject_taxon_label: {}
  object_label: {}
  object_namespace: {}
  object_closure:
    multivalued: true
  object_closure_label:
    multivalued: true
  object_taxon: {}
  object_taxon_label: {}
  disease_context_qualifier_label: {}
  disease_context_qualifier_category: {}
  disease_context_qualifier_namespace: {}
  disease_context_qualifier_closure:
    multivalued: true
  disease_context_qualifier_closure_label:
    multivalued: true
  species_context_qualifier_label: {}
  species_context_qualifier_category: {}
  species_context_qualifier_namespace: {}
  stage_qualifier_label: {}
  stage_qualifier_category: {}
  stage_qualifier_namespace: {}
  sex_qualifier_label: {}
  sex_qualifier_category: {}
  sex_qualifier_namespace: {}
  onset_qualifier_label: {}
  onset_qualifier_category: {}
  onset_qualifier_namespace: {}
  frequency_qualifier_label: {}
  frequency_qualifier_category: {}
  frequency_qualifier_namespace: {}
classes:
  Entity:
    description: Post-closurize node shape (entity + closure expansion + per-predicate
      aggregations).
    slots:
    - id
    - category
    - name
    - synonym
    - full_name
    - in_taxon
    - in_taxon_label
    - symbol
    - file_source
    - provided_by
    - xref
    - type
    - has_gene
    - iri
    - description
    - has_attribute
    - has_biological_sex
    - deprecated
    - exact_synonym
    - broad_synonym
    - narrow_synonym
    - related_synonym
    - same_as
    - subsets
    - synonyms
    - namespace
    - has_phenotype
    - has_phenotype_label
    - has_phenotype_count
    - has_phenotype_closure
    - has_phenotype_closure_label
    - has_descendant
    - has_descendant_label
    - has_descendant_count
  Association:
    description: Post-closurize edge shape (association + subject/object closure expansion).
    slots:
    - id
    - predicate
    - category
    - agent_type
    - aggregator_knowledge_source
    - knowledge_level
    - primary_knowledge_source
    - file_source
    - provided_by
    - FDA_adverse_event_level
    - disease_context_qualifier
    - publications
    - qualifiers
    - has_evidence
    - original_predicate
    - frequency_qualifier
    - has_count
    - has_percentage
    - has_quotient
    - has_total
    - negated
    - onset_qualifier
    - sex_qualifier
    - has_attribute
    - object_aspect_qualifier
    - sources
    - supporting_text
    - species_context_qualifier
    - stage_qualifier
    - qualifier
    - object_specialization_qualifier
    - subject
    - object
    - original_subject
    - original_object
    - evidence_count
    - grouping_key
    - subject_label
    - subject_category
    - subject_namespace
    - subject_closure
    - subject_closure_label
    - subject_taxon
    - subject_taxon_label
    - object_label
    - object_category
    - object_namespace
    - object_closure
    - object_closure_label
    - object_taxon
    - object_taxon_label
    - disease_context_qualifier_label
    - disease_context_qualifier_category
    - disease_context_qualifier_namespace
    - disease_context_qualifier_closure
    - disease_context_qualifier_closure_label
    - species_context_qualifier_label
    - species_context_qualifier_category
    - species_context_qualifier_namespace
    - stage_qualifier_label
    - stage_qualifier_category
    - stage_qualifier_namespace
    - sex_qualifier_label
    - sex_qualifier_category
    - sex_qualifier_namespace
    - onset_qualifier_label
    - onset_qualifier_category
    - onset_qualifier_namespace
    - frequency_qualifier_label
    - frequency_qualifier_category
    - frequency_qualifier_namespace