exact.ibd.var: create an ibd.var object

In ibdreg: Regression Methods for IBD Linkage with Covariates

create an ibd.var object

Description

create an ibd.var object from a temporary output file produced by exact.ibd.var.pl perl script, which uses exact computations from merlin

Usage

exact.ibd.var(file)

Arguments

file	a temporary output file created by exact.ibd.var.pl, a perl scripts provided in /ibdreg/perl/ in the ibdreg package

Value

an ibd.var object (e.g. ret) that contains the following elements for each pedigree:

ped.id	pedigree id
$person1.id	vector of ids for first person in the relative pair
person2.id	vector of ids for second person in the relative pair
sm	mean vector of ibd sharing between relative pairs person1.id, person2.id
sv	variance-covariance matrix for ibd sharing between pairs of relative pairs

See Also

sim.ibd.var

Examples

## create a temporary file using perl script

# unix% exact.ibd.var.pl chrom1.pre 1 chr1.var.tmp

## make an ibd.var object from chr1.var.tmp file

# R> chr1.ibd.var <- exact.ibd.var("chr1.var.tmp")

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