chrp: Split hg19

In GMRP: GWAS-based Mendelian Randomization and Path Analyses

Description

Split string hg19 into two numeric columns: chr and posit.

Usage

chrp(hg)

Arguments

hg	character vector represented with codechr##.####### where chr## is chromosome number and .####### is SNP site (bp).

Details

chrp can convert chr##.####### into two numeric columns: chr(chromosome number) and posit(SNP position)

Value

Return two numeric vectors: chrosomome number and SNP position

Note

If there is chrX.######### in the data sheet, then user should change chrX.######## to chr23.#######.

Note

hg may also be hg18. User can also use packages GenomicRanges to retrieve chromosome # and SNP position.

Author(s)

Yuan-De Tan [e-mail]

\Dajiang Liu

See Also

mktable,link{GenomicRanges}[Granges],link{GenomicRanges}[IRangs],link{GenomicRanges}[DataFrame]

Examples

data(lpd.data)
lpd<-lpd.data
hg19<-lpd$SNP_hg19.HDL
chr<-chrp(hg=hg19)

GMRP documentation built on Nov. 8, 2020, 5:58 p.m.