readPLINK: Read PLINK binary data

In statgenGWAS: Genome Wide Association Studies

Read PLINK binary data

Description

Read PLINK binary data and save in gData format. This is a wrapper around read.plink in the Bioconductor package snpStats. This package needs to be installed for the function to work.

Usage

readPLINK(bed, bim, fam, ...)

Arguments

bed	The name of the file containing the packed binary SNP genotype data. It should have the extension .bed; If it doesn't, then this extension will be appended.
bim	The file containing the SNP descriptions. If not specified bed is used with its file extension replaced by bim.
fam	The file containing subject (and, possibly, family) identifiers. This is basically a tab-delimited "pedfile". If not specified bed is used with its file extension replaced by fam.
...	Further arguments passed to read.plink.

Value

An object of class gData.

statgenGWAS documentation built on Oct. 13, 2022, 5:05 p.m.