choose.top.snps: Select the highest r2 SNPs to a given top marker.

In cgmisc-team/cgmisc: Various functions useful in computational genetics, e.g. in GWAS

Select the highest r2 SNPs to a given top marker.

Description

Calculates r2 and selects SNPs with highest r2 to a given top marker.

Usage

choose.top.snps(data, chr, region, index.snp)

Arguments

data	data object in gwaa.data-class
chr	chromosome number (name) to be displayed
region	a vector of two coordinates
index.snp	the reference SNP (name of the marker)

Value

matrix with highest r2 SNPs with their r2 values and coordinates

Author(s)

Marcin Kierczak <[e-mail]> Jagoda Jablonska <[e-mail]

cgmisc-team/cgmisc documentation built on Jan. 3, 2024, 9:52 p.m.