Rdiagnosislist (version 1.4.0)

decompose: Decomposition of meaning of a finding or disorder SNOMED CT concept

Description

Decomposes a SNOMED CT term into separate components according to the SNOMED CT information model and text parsing. Each term may have a number of possible decompositions. Requires a CDB environment created by createCDB.

Usage

decompose(
  conceptIds,
  diagnosis_text = NULL,
  CDB,
  SNOMED = getSNOMED(),
  noisy = FALSE,
  omit_unmatched = TRUE
)

Value

a SNOMEDfinding objects, which is a data.table with columns rootId (integer64), with (integer64), due_to (integer64), after (integer64), without (integer64), body_site (integer64), severity (integer64), stage (integer64), laterality (integer64), roottext (character), partId (integer64), other_conceptId (character, a string of SNOMED CT concept IDs separated by spaces), origId (integer64)

Arguments

conceptIds

vector of SNOMED CT concepts to decompose

diagnosis_text

vector of SNOMED CT terms (or in theory any text that has the same meaning as the SNOMED CT concept). If NULL, decompositions are created for all SNOMED CT synonyms of the concepts.

CDB

an environment containing CDB files, as created by createCDB

SNOMED

an environment containing the SNOMED CT dictionary

noisy

whether to output messages (for debugging)

omit_unmatched

whether to omit rows in which some attributes could not be matched to SNOMED CT concepts

Examples

if (FALSE) {
miniCDB <- createCDB(SNOMED = sampleSNOMED())
D <- decompose(as.SNOMEDconcept('Cor pulmonale',
  SNOMED = sampleSNOMED()), CDB = miniCDB, SNOMED = sampleSNOMED())
}

# -------------------------------------------------------
# 83291003 | Cor pulmonale (disorder)
# -------------------------------------------------------
# Root : 367363000 | Right ventricular failure (disorder)
# - Due to : 19829001 | Disorder of lung (disorder)