readCsv: Used to read a .csv file

In CohortGenerator: Cohort Generation for the OMOP Common Data Model

Used to read a .csv file

Description

This function is used to centralize the function for reading .csv files across the HADES ecosystem. This function will automatically convert from snake_case in the file to camelCase in the data.frame returned as is the standard described in: https://ohdsi.github.io/Hades/codeStyle.html#Interfacing_between_R_and_SQL

Usage

readCsv(file, warnOnCaseMismatch = TRUE, colTypes = readr::cols())

Arguments

file	The .csv file to read.
warnOnCaseMismatch	When TRUE, raise a warning if column headings in the .csv are not in snake_case format
colTypes	Corresponds to the 'col_types' in the 'readr::read_csv' function. One of 'NULL', a [readr::cols()] specification, or a string. See 'vignette("readr")' for more details. If 'NULL', all column types will be inferred from 'guess_max' rows of the input, interspersed throughout the file. This is convenient (and fast), but not robust. If the guessed types are wrong, you'll need to increase 'guess_max' or supply the correct types yourself. Column specifications created by [list()] or [cols()] must contain one column specification for each column. Alternatively, you can use a compact string representation where each character represents one column: - c = character - i = integer - n = number - d = double - l = logical - f = factor - D = date - T = date time - t = time - ? = guess - _ or - = skip By default, reading a file without a column specification will print a message showing what 'readr' guessed they were. To remove this message, set 'show_col_types = FALSE' or set 'options(readr.show_col_types = FALSE)'.

Value

A tibble with the .csv contents

CohortGenerator documentation built on Oct. 1, 2024, 1:09 a.m.