ComputeKinshipPropCoef-methods: ratio of excess kinship among descendants over mean kinship...

In RVS: Computes estimates of the probability of related individuals sharing a rare variant

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

ComputeKinshipPropCoef(ped)

## S4 method for signature 'pedigree'
ComputeKinshipPropCoef(ped)

Arguments

ped	pedigree object (S3)

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

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.

Examples

data(samplePedigrees)
ComputeKinshipPropCoef(samplePedigrees$firstCousinTriple)

RVS documentation built on Nov. 8, 2020, 6:57 p.m.