IFP (version 0.2.4)

hap.freq: Estimation of Haplotype Frequencies with Two SNPs

Description

EM computation of haplotype frequencies with two SNPs. The computation is relied on the package"haplo.stats".

Usage

hap.freq(geno)

Arguments

geno

matrix of alleles, such that each locus has a pair of adjacent columns of alleles, and the order of columns corresponds to the order of loci on a chromosome. If there are K loci, then ncol(geno) = 2*K. Rows represent the alleles for each subject. Each allele shoud be represented as numbers (A=1,C=2,G=3,T=4).

Value

matrix of haplotype frequencies consisted of two alleles from each SNP. These alleles are the same ones computed for frequency using the function "allele.freq".

See Also

allele.freq

Examples

# NOT RUN {
 data(apoe)
 hap.freq(apoe7)
 hap.freq(apoe)
# }