missing_from_bfile: Let 'PLINK'/'PLINK2' calculate the missing rates summary...

In richelbilderbeek/plinkr: Interface to PLINK

Let PLINK/PLINK2 calculate the missing rates summary statistic.

Description

Let PLINK/PLINK2 calculate the missing rates summary statistic from PLINK1 binary filenames

Usage

missing_from_bfile(bfile, out, plink_options = create_plink_options())

Arguments

bfile	the base filename of the binary files (i.e. a .bed, .bim and .fam file). This parameter is named after the PLINK --bfile flag
out	the base filename of the output files. This parameter is named after the PLINK --out flag
plink_options	options to run PLINK, as created by create_plink_options

Value

a list with the following elements:

• imiss_table table with the missing genotype data per individual

• lmiss_table table with the missing genotype data per SNP

• log the log text

Note

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

Author(s)

Richèl J.C. Bilderbeek

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