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omophub (version 1.1.0)

MappingsResource: Mappings Resource

Description

R6 class providing access to mapping operations.

Arguments

Value

Mappings with summary.

Mapping results with summary.

Methods

Method new()

Create a new MappingsResource.

Usage

MappingsResource$new(base_req)

Arguments

base_req

Base httr2 request object.

Method get()

Get mappings for a concept.

Usage

MappingsResource$get(
  concept_id,
  target_vocabularies = NULL,
  mapping_types = NULL,
  direction = "both",
  include_indirect = FALSE,
  standard_only = FALSE,
  include_mapping_quality = FALSE,
  include_synonyms = FALSE,
  include_context = FALSE,
  active_only = TRUE,
  sort_by = NULL,
  sort_order = NULL,
  page = 1,
  page_size = 50
)

Arguments

concept_id

The concept ID.

target_vocabularies

Filter by target vocabularies.

mapping_types

Filter by mapping types.

direction

Mapping direction ("outgoing", "incoming", "both"). Default "both".

include_indirect

Include indirect mappings. Default FALSE.

standard_only

Only standard concept mappings. Default FALSE.

include_mapping_quality

Include quality metrics. Default FALSE.

include_synonyms

Include synonyms. Default FALSE.

include_context

Include mapping context. Default FALSE.

active_only

Only active mappings. Default TRUE.

sort_by

Sort field.

sort_order

Sort order.

page

Page number. Default 1.

page_size

Results per page. Default 50.

Method map()

Map concepts to a target vocabulary.

Usage

MappingsResource$map(
  source_concepts,
  target_vocabulary,
  mapping_type = NULL,
  include_invalid = FALSE
)

Arguments

source_concepts

Vector of OMOP concept IDs to map.

target_vocabulary

Target vocabulary ID (e.g., "ICD10CM", "SNOMED").

mapping_type

Mapping type (direct, equivalent, broader, narrower).

include_invalid

Include invalid mappings. Default FALSE.

Method print()

Print resource information.

Usage

MappingsResource$print()

Method clone()

The objects of this class are cloneable with this method.

Usage

MappingsResource$clone(deep = FALSE)

Arguments

deep

Whether to make a deep clone.