getAdditivelyCodedMatrix: Code additively the genotypes Sum the two columns per...

In vincela/VarExp: Computes phenotypic variance explained by a set of genetic and/or interaction effects

Description

Code additively the genotypes Sum the two columns per individual of the input matrix (each corresponding to one chromosome) to get the additive coding of the individual at the locus.

Usage

getAdditivelyCodedMatrix(genoMat, lind)

Arguments

genoMat	is the matrix of genotype with two colums per individual Rows are variants and columns are individuals
lind	is the list of individual in the genotype matrix

Value

The additively coded genotyped matrix

Examples

genoMat = matrix(rbinom(5*10,1,runif(10,0,1)),nrow=5,ncol=10)
lind = c("ind1","ind2","ind3","ind4","ind5")
colnames(genoMat) = rep(lind,each=2)
addCodedMat = getAdditivelyCodedMatrix(genoMat, lind)

vincela/VarExp documentation built on May 29, 2019, 12:42 p.m.