createCDB: Creates an environment containing CDB files

In anoopshah/Rdiagnosislist: Manipulate SNOMED CT Diagnosis Lists

Creates an environment containing CDB files

Description

Extracts SNOMED CT concepts from appropriate places in the hierarchy to create a set of CDB files in an environment. Uses WordNet and manual synonyms if available.

Usage

createCDB(
  SNOMED = getSNOMED(),
  TRANSITIVE = NULL,
  WN = NULL,
  MANUAL_SYNONYMS = NULL,
  noisy = TRUE,
  stopwords = c("the", "of", "by", "with", "to", "into", "and", "or", "at", "as",
    "and/or", "in")
)

Arguments

SNOMED	environment containing a SNOMED dictionary
TRANSITIVE	transitive closure table, generated by createTransitive. It is regenerated if not provided.
WN	WordNet data.table as returned by downloadWordnet containing WordNet data from appropriate categories, in the format: cat (character), wordnetId (integer64), synonyms (list), parents (list), adj (list)
MANUAL_SYNONYMS	data.table with columns term1 and term2, containing additional exact synonyms or abbreviations
noisy	whether to output status messages
stopwords	vector of stopwords

Value

environment containing the following data tables: FINDINGS, QUAL, CAUSES, BODY, OTHERCAUSE, OTHERSEARCH, OVERLAP, TRANSITIVE

See Also

exportMiADECDB, MANUAL_SYNONYMS

Other CDB functions: addComposeLookupToCDB(), addWordnet(), batchDecompose(), downloadOrphanet(), downloadWordnet()

Examples

# Not run
# data(MANUAL_SYNONYMS)
# WN <- downloadWordnet()
# MANUAL_SYNONYMS <- rbind(MANUAL_SYNONYMS, downloadOrphanet())
# CDBNEW <- createCDB(WN = WN, MANUAL_SYNONYMS = MANUAL_SYNONYMS)

anoopshah/Rdiagnosislist documentation built on March 29, 2025, 10:46 a.m.