create.pairs.frame: create a data frame for relative pairs

In ibdreg: Regression Methods for IBD Linkage with Covariates

create a data frame for relative pairs

Description

create a data frame for relative pairs containing identifiers, response, and covariates

Usage

create.pairs.frame(ibd.dat, model.mat, formula, c.scale)
create.pairs.frame.cvec(c.scale, prior2, prior1)

Arguments

ibd.dat	object of class ibd.dat
model.mat	a model matrix containing covariates for each person; to be used in making covariates for the relative pair
formula	format is either ~1 or ~pairs.fun(cov1). If the latter, the columns of the returned x.mat will be the result of the function operated on the covariate for each relative in the relative pair.
c.scale	scaling factor for covariates. Either "nodom" for no dominance variance or "minimax".
prior2	Prior probability of relative pairs to share 2 alleles ibd (from ibd.dat object)
prior1	Prior probability of relative pairs to share 1 allele ibd (from ibd.dat object)

Value

a list of 3 data frames all with the same number of rows. These data frames are id.df (3-columns of ped.id, person1.id, person2.id), y.mat (estimated ibd allele sharing, which is the regression response), status.df (3-columns for AA, UU, or AU status for the pair), x.mat (model matrix with intercept and, if covariates in formula, columns for covariates).

See Also

create.ibd.dat

ibdreg documentation built on Nov. 16, 2022, 5:14 p.m.