assoc_qt_on_plink_text_files: Let 'PLINK' detect an association with one or more...

In richelbilderbeek/plinkr: Interface to PLINK

Let PLINK detect an association with one or more quantitative traits with files in PLINK text format.

Description

Let PLINK detect an association with one or more quantitative traits with files in PLINK text format.

Usage

assoc_qt_on_plink_text_files(
  assoc_qt_data,
  assoc_qt_params,
  plink_options = create_plink_v1_9_options(),
  verbose = FALSE
)

Arguments

assoc_qt_data	data use to used by assoc_qt (as created by create_assoc_qt_data), which equals 'regular' data (see check_data) and a phenotype table/file
assoc_qt_params	parameters to do an association analysis for a quantitative trait (i.e. using assoc_qt), as can be created by create_assoc_qt_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 elements:

• qassoc_filenames: names of the created association files

• log_filename: name of the PLINK log file

Note

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

Author(s)

Richèl J.C. Bilderbeek

See Also

use assoc_qt_on_plink_bin_data to work on data directly

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