SeqArray (version 1.10.1)

seqSNP2GDS: Convert SNPRelate Format to SeqArray Format

Description

Converts a SNP GDS file to a sequence GDS file.

Usage

seqSNP2GDS(gds.fn, out.gdsfn, compress.geno="ZIP_RA", compress.annotation="ZIP_RA", optimize=TRUE, verbose=TRUE)

Arguments

gds.fn

the file name of SNP format

out.gdsfn

the file name, output a file of SeqArray format

compress.geno

the compression method for "genotype"; optional values are defined in the function add.gdsn

compress.annotation

the compression method for the GDS variables, except "genotype"; optional values are defined in the function add.gdsn

optimize

if TRUE, optimize the access efficiency by calling cleanup.gds

verbose

if TRUE, show information

Value

Return the file name of SeqArray file with an absolute path.

See Also

seqGDS2SNP, seqVCF2GDS, seqGDS2VCF

Examples

library(SNPRelate)

# the GDS file
gds.fn <- snpgdsExampleFileName()

seqSNP2GDS(gds.fn, "tmp.gds")

seqSummary("tmp.gds")


# remove the temporary file
unlink("tmp.gds", force=TRUE)