mPhen.sampleGeno: Sample genotypes

In MultiPhen: A Package to Test for Multi-Trait Association

Description

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Usage

mPhen.sampleGeno(n = 100, sampSize = 100, chr="0",pos = 1:n, 
snpids = paste(chr,pos,sep="_"),meanAlleleFreq=0.2, mu = 10,
samples =paste("id",1:sampSize,sep="_"),imputed = FALSE, dirichlet = 1)

Arguments

n	Number of genotypes to sample
sampSize	Number of individuals to sample
chr	Name of chromosome
pos	Positions of genotypes on chromosome
snpids	Ids of genotypes
meanAlleleFreq	The mean allele frequency to simulate
mu	A weight parameter which controls how close to the meanAlleleFreq the allele frequencies are sampled, via a beta distribution. A higher number implies allele frequencies stay closer to mean
samples	The sample ids
imputed	Whether to simulate imputed data
dirichlet	The weight of a dirichlet distribution used to simulated imputed data

Value

Returns matrix of genotypes, with individuals by rows, and snps by column, or a 3 dimensional array if imputed is TRUE

MultiPhen documentation built on Feb. 9, 2020, 5:07 p.m.