write.bed.matrix: Save a 'bed.matrix'

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

Save a bed.matrix

Description

Save a bed.matrix in several files

Usage

write.bed.matrix(x, basename, bed = paste(basename, ".bed", sep=""),   
                              fam = paste(basename, ".fam", sep=""),
                              bim = paste(basename, ".bim", sep=""), 
                              rds = paste(basename, ".rds", sep=""))

Arguments

x	A bed.matrix
basename	Basename of all files
bed	Name of the .bed file
fam	Name of the .fam file
bim	Name of the .bim file
rds	Name of the .rds file

Details

If any of bed, fam, bim and rds is NULL, the corresponding file will not be written.

The .fam and .bim files are useful for reading files with other softwares. The .rds file can be read by read.bed.matrix.

The .bed, .fam and .bim files follow the PLINK specifications (http://zzz.bwh.harvard.edu/plink/binary.shtml).

Author(s)

Hervé Perdry and Claire Dandine-Roulland

See Also

read.bed.matrix, saveRDS

Examples

# Load data
data(LCT)
x <- as.bed.matrix(LCT.gen, LCT.fam, LCT.bim)

# Write object in LCT.bed and LCT.RData
## Not run: 
write.bed.matrix(x, "LCT")

## End(Not run)

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