plink2_assoc: Let 'PLINK2' detect an association with one binary traits.

In richelbilderbeek/plinkr: Interface to PLINK

Let PLINK2 detect an association with one binary traits.

Description

Let PLINK2 detect an association with one binary traits.

Usage

plink2_assoc(
  assoc_data,
  assoc_params,
  plink_options = create_plink_v2_0_options(),
  verbose = FALSE
)

Arguments

assoc_data	data to use for an association analysis for a quantitative trait (i.e. using assoc), as can be created by create_assoc_data
assoc_params	parameters to do an association analysis for a quantitative trait (i.e. using assoc), as can be created by create_assoc_params
plink_options	options to run PLINK, as created by create_plink_options
verbose	the verbosity of a function. Set to TRUE for more output. Use check_verbose to detect if this argument is valid.

Value

a list with the following columns:

• assoc_table: a tibble with associations found by PLINK. See read_plink_assoc_file for an explanation of the column names.

• log: the log file as text as created by PLINK

Note

This function is named after the --assoc flag used by PLINK

Author(s)

Richèl J.C. Bilderbeek

Examples

if (is_plink_installed()) {

  if (1 == 2) {
    # Need help of 'pgenlibr' to save a .pgen file
    plink2_assoc(
      assoc_data = create_assoc_data(create_test_plink2_bin_data()),
      assoc_params = create_test_assoc_params()
    )
  }
}

richelbilderbeek/plinkr documentation built on March 25, 2024, 3:18 p.m.