convert_plink2_bin_data_to_plink_bin_data: Convert the 'PLINK2' binary data to 'PLINK' binary data

In richelbilderbeek/plinkr: Interface to PLINK

Convert the PLINK2 binary data to PLINK binary data

Description

Convert the PLINK2 binary data to PLINK binary data

Usage

convert_plink2_bin_data_to_plink_bin_data(
  plink2_bin_data,
  plink_options = create_plink_v2_0_options(),
  verbose = FALSE
)

Arguments

plink2_bin_data	the genetic and phenotypic data for PLINK2 to work on, in PLINK2 binary format, as created by create_plink2_bin_data.
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

the same list that was used as input, except that the following elements

• pgen_table (see check_pgen_table)

• psam_table (see check_psam_table)

• pvar_table (see check_pvar_table)

are replaced by:

• bim_table (see check_bim_table)

• fam_table (see check_fam_table)

• bed_table (see check_bed_table)

The other list elements are left as-is.

Author(s)

Richèl J.C. Bilderbeek

See Also

these are the functions to convert between the PLINK and PLINK2 formats:

• To convert from PLINK1 text data

  • to PLINK1 binary data: use convert_plink_text_data_to_plink_bin_data

  • to PLINK2 binary data, use convert_plink_text_data_to_plink2_bin_data

• To convert from PLINK1 binary data

  • to PLINK text data, use convert_plink_bin_data_to_plink_text_data

  • to PLINK2 binary data, use convert_plink_bin_data_to_plink2_bin_data

• To convert from PLINK2 binary data

  • to PLINK text data, use convert_plink2_bin_data_to_plink_text_data

  • to PLINK binary data, use convert_plink2_bin_data_to_plink_bin_data

Examples

if (is_plink_installed(plink_options = create_plink_v2_0_options())) {
  convert_plink2_bin_data_to_plink_bin_data(
    plink2_bin_data = create_test_plink2_bin_data()
  )
}

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