snpgdsOption {SNPRelate}R Documentation

Option settings: chromosome coding, etc

Description

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

Usage

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

Arguments

gdsobj

an object of class SNPGDSFileClass, a SNP GDS file

autosome.start

the starting index of autosome

autosome.end

the ending index of autosome

...

optional arguments for new chromosome coding

Value

A list

Author(s)

Xiuwen Zheng

Examples

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


# open an example dataset (HapMap)
genofile <- snpgdsOpen(snpgdsExampleFileName())

snpgdsOption(genofile)

# close the genotype file
snpgdsClose(genofile)
[Package SNPRelate version 1.10.2 Index]