compute.kinship.prop.coef: Ratio of excess kinship among descendants over mean kinship...

In syounkin/RVsharing: Probability of Sharing Rare Variants among Relatives

Description

Computes, for each pair of final descendants in the pedigree structure contained in the pedigree object, the ratio of the difference between the inferred and expected kinship coefficient for the pair over the mean kinship among founders.

Usage

## S4 method for signature 'RVsharingProb'
ComputeKinshipPropCoef(obj)

Arguments

obj	obj is a RVsharingProb object returned by the function RVsharing

Details

The ratio for each pair of final descendants is computed using equation (A1) of Bureau et al. Dividing the difference between the inferred and expected kinship coefficient for each pair by this ratio gives a pair-specific estimate of the mean kinship among founders, which can then be averaged over all pairs of final descendants from the same population to obtain a global estimate of the mean kinship among founders.

Value

A symmetric matrix of ratios for all pair of final descendants in the pedigree structure contained in the pedigree object.

Author(s)

Alexandre Bureau <[e-mail]>

References

Bureau, A., Younkin, S., Parker, M.M., Bailey-Wilson, J.E., Marazita, M.L., Murray, J.C., Mangold, E., Albacha-Hejazi, H., Beaty, T.H. and Ruczinski, I. (2014) Inferring rare disease risk variants based on exact probabilities of sharing by multiple affected relatives. Bioinformatics, 30(15): 2189-96, doi:10.1093/bioinformatics/btu198.

See Also

pedigree

Examples

data(ped.list)
plot(ped.list[[1]])
obj = RVsharing(ped.list[[1]])
ComputeKinshipPropCoef(obj)

syounkin/RVsharing documentation built on May 31, 2019, 12:47 a.m.