spec_type_to_codelist: Spec to codelist

In metacore: A Centralized Metadata Object Focus on Clinical Trial Data Programming Workflows

Spec to codelist

Description

Creates the value_spec from a list of datasets (optionally filtered by the sheet input). The named vector *_cols is used to determine which is the correct sheet and renames the columns.

Usage

spec_type_to_codelist(
  doc,
  codelist_cols = c(code_id = "ID", name = "[N|n]ame", code = "^[C|c]ode|^[T|t]erm",
    decode = "[D|d]ecode"),
  permitted_val_cols = NULL,
  dict_cols = c(code_id = "ID", name = "[N|n]ame", dictionary = "[D|d]ictionary", version
    = "[V|v]ersion"),
  sheets = NULL,
  simplify = FALSE
)

Arguments

doc	Named list of datasets @seealso read_all_sheets() for exact format
codelist_cols	Named vector of column names that make up the codelist. The column names can be regular expressions for more flexibility. But, the names must follow the given pattern
permitted_val_cols	Named vector of column names that make up the permitted value The column names can be regular expressions for more flexibility. This is optional, can be left as null if there isn't a permitted value sheet
dict_cols	Named vector of column names that make up the dictionary value The column names can be regular expressions for more flexibility. This is optional, can be left as null if there isn't a permitted value sheet
sheets	Optional, regular expressions of the sheets
simplify	Boolean value, if true will convert code/decode pairs that are all equal to a permitted value list. True by default

Value

a dataset formatted for the metacore object

See Also

Other spec builder: spec_type_to_derivations(), spec_type_to_ds_spec(), spec_type_to_ds_vars(), spec_type_to_value_spec(), spec_type_to_var_spec()

metacore documentation built on March 7, 2023, 7:45 p.m.