addWordNet: Use WordNet to assist concept database creation

In anoopshah/Rdiagnosislist: Manipulate SNOMED CT Diagnosis Lists

Use WordNet to assist concept database creation

Description

Adds terms from a WordNet thesaurus to a concept database, matching on term. It is recommended to restrict the wordnet categories to ensure that words with multiple meanings are not linked to the wrong synonym.

Usage

addWordNet(CDB_TABLE, wn_categories, WN, CHECK_TABLE = NULL)

Arguments

CDB_TABLE	data.frame or data.table with columns conceptId (integer64) and term (character, with space before and after) containing existing descriptions in the CDB
wn_categories	WordNet categories to use
WN	WordNet data.table as returned by downloadWordnet
CHECK_TABLE	other table in the same format as CDB_TABLE to check for WordNet synonyms that link to another unrelated concept, where this synonym will be excluded because of the risk of errors

Value

CDB_TABLE with extra rows for Wordnet synonyms

References

https://wordnet.princeton.edu/

See Also

[downloadWordNet()]

Examples

WORDNET <- data.table::data.table(cat = c('noun.body', 'noun.state'),
  wordnetId = bit64::as.integer64('1', '2'),
  synonyms = list(c('heart', 'pump', 'ticker'),
  c('infection', 'infectious')),
  parents = list('cardiovascular system',
  'pathologic process'), 
  adj = list('cardiac', 'infectious'))
# Add Wordnet synonyms to a concept database table
SNOMED <- sampleSNOMED()
CDB_TABLE <- description(c('Heart', 'Infection'),
  include_synonyms = TRUE)[type == 'Synonym',
  .(conceptId, term = paste0(' ', tolower(term), ' '))]
addWordNet(CDB_TABLE, 'noun.state', WORDNET)

anoopshah/Rdiagnosislist documentation built on Sept. 25, 2024, 12:20 p.m.