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 1.28.0 Index]