SeqArray (version 1.8.0)

seqCompress.Option: Compression Options for Importing VCF File(s)

Description

Get compression options for importing VCF file(s)

Usage

seqCompress.Option(default="ZIP.MAX", ...)

Arguments

default

the default compression level

...

optional arguments

Value

Return a list with a class name "seqCompress.class".

See Also

seqVCF2GDS

Examples

# the file of VCF
(vcf.fn <- seqExampleFileName("vcf"))
# or vcf.fn <- "C:/YourFolder/Your_VCF_File.vcf"

# convert
seqVCF2GDS(vcf.fn, "tmp1.gds", compress.option = seqCompress.Option())
(f1 <- seqOpen("tmp1.gds"))


# does not compress the genotypic data
seqVCF2GDS(vcf.fn, "tmp2.gds", compress.option = seqCompress.Option(genotype=""))
(f2 <- seqOpen("tmp2.gds"))


# close and remove
seqClose(f1)
seqClose(f2)
unlink(c("tmp1.gds", "tmp2.gds"))