as.bed.matrix: Creation of a bed.matrix

In gaston: Genetic Data Handling (QC, GRM, LD, PCA) & Linear Mixed Models

Creation of a bed.matrix

Description

Creates a bed.matrix using a numeric matrix and two data frame for ped / snps slots

Usage

 
as.bed.matrix(x, fam, bim)

Arguments

x	A numeric matrix
fam	(Optionnal) A data frame (the contents of a .fam file)
bim	(Optionnal) A data frame (the contents of a .bim file)

Details

The data frame fam should have columns named "famid", "id", "father", "mother", "sex" and "pheno". The data frame bim should have columns named "chr", "id", "dist", "pos", "A1" and "A2".

Value

A bed.matrix condensing all three arguments.

Author(s)

Hervé Perdry and Claire Dandine-Roulland

See Also

bed.matrix-class

Examples

data(AGT)
x <- as.bed.matrix(AGT.gen, AGT.fam, AGT.bim)
x

gaston documentation built on Dec. 28, 2022, 1:30 a.m.