find.t: Find transmission ratio of minor alleles in mother, father or...

In TRD: Transmission Ratio Distortion

Description

Calculate the transmission ratio of the minor allele from parents to offspring for case- and control-trios, in mother, father, or both parents. Minor allele normally refers to the disease allele, which has lower frequency than the alternative allele(s). Note that trios with missing data are discarded.

Usage

find.t(sample)

Arguments

sample

case- and/or control-trios dataset with first column as disease status (1=case, 0=control), the second, third and forth columns as maternal, paternal and child genotypes. The fifth column, if entered as part of the input data, is the parent-of-origin indicator of disease allele in a heterozygous child (a value of 1 indicates the mother transmitted the disease allele and 0 indicates the father transmitted). The parent-of-origin indicator is only meaningful for a heterozygous child.

Value

cases	transmission ratio of minor allele from mother, father and both parents of case-trios to the offspring
ctrls	transmission ratio of minor allele from mother, father and both parents of control-trios to the offspring

Author(s)

Lam Opal Huang

See Also

rtrios

Examples

trios=rtrios(100000,500,0.1,0.2,0.3,1,0.5,0.5,0.1)
find.t(trios$case)
find.t(trios$ctrl)
find.t(rbind(trios$case,trios$ctrl))

TRD documentation built on May 2, 2019, 5:12 a.m.