snpgdsOption: Option settings: chromosome coding, etc

In SNPRelate: Parallel Computing Toolset for Genome-Wide Association Studies (GWAS)

Description

Return an option list used by the SNPRelate package or a GDS file

Usage

snpgdsOption(gdsobj=NULL, autosome.start=1, autosome.end=22, ...)

Arguments

gdsobj	a GDS file object (gds.class)
autosome.start	the starting index of autosome
autosome.end	the ending index of autosome
...	optional arguments for new chromosome coding

Author(s)

Xiuwen Zheng

Examples

# define the new chromosomes 'Z' and 'W'
snpgdsOption(Z=27, W=28)


# open an example dataset (HapMap)
genofile <- openfn.gds(snpgdsExampleFileName())

snpgdsOption(genofile)

# close the genotype file
closefn.gds(genofile)

SNPRelate documentation built on May 2, 2019, 4:56 p.m.