QTLRel (version 0.2-9)

genMatrix: Derive genetic matrices

Description

Derive genetic matrices from Jacquard condensed identity coefficients or genotypic data.

Usage

genMatrix(x)

Arguments

x

an object of cic or ibs, or genotypic data in a matrix or a data frame with each row representing an observation and each column a marker locus and entry being "AA",

Value

• AA
  additive genetic matrix.
• DD
  dominance genetic matrix.
• AD,HH,MH
  other three genetic matrices (see Abney et. al. 2000).
• ib
  inbreeding coefficients.

References

Abney, M., M. S. McPeek, and C. Ober (2000). Estimation of variance components of quantitative traits in inbred populations. Am. J. Hum. Genet. 141, 629-650.

See Also

cic

Examples

data(miscEx)

id<- sample(ped$id[300:500],20)
# get condensed identity coefficients
oo<- cic(ped,id,df=0)
ksp<- kinship(ped,ids=id) # kinship coefficients only
# extract genetic matrices
gm<- genMatrix(oo)
sum((gm$AA-2*ksp)>1e-7) # same results