check_dfDefinitions_codes: Check if the illness/medication codes in definition table are...

In niekverw/ukbpheno: Extraction and processing UK Biobank data to generate health outcome phenotypes

Check if the illness/medication codes in definition table are found the coding files

Description

Given a definition table and the directory with codings, check if codes in definition table are present in the coding files.

Usage

check_dfDefinitions_codes(
  dfDefinitions_processed,
  lst.data.settings,
  code_map_dir = "data/",
  check_expandable_codes_only = T
)

Arguments

dfDefinitions_processed	definition table as dataframe
lst.data.settings	data.setting as dataframe, it includes settings that should be used, e.g. if ICD10 should be looked up case sensitive or not (incase of READ cases are important, dotts should also NOT be interpreted)
code_map_dir	the directory storing the coding files
check_expandable_codes_only	boolean flag to indicate whether or not to check the only codes to be expanded

Value

character vector that are missing

niekverw/ukbpheno documentation built on Oct. 30, 2023, 9:17 p.m.