lkNoneAffect.cs: Likelihood for un-affected individuals for cancer-specific...
In wwylab/LFSPRO: TP53 germline mutation carrier estimation and cancer risk predictions

lkNoneAffect.cs

R Documentation

Likelihood for un-affected individuals for cancer-specific model

Description

The probability of observing cancer outcome given genotype for each un-affected individual in the family in the cancer-specific model.

Usage

lkNoneAffect.cs(penetrance, age)

Arguments

penetrance

List. Two lists indicate the cancer-specific penetrances of male and female (fMX: male, fFX: female), respectively. For each list, it contains 4 of 110x3 penetrance matrices, row: from age 1 to age 110, column: three kinds of genotype: P530 (wild type, neither of allele mutated), P531 (one allele mutated in P53) and P532 (two alleles mutated in P53). Each matrix represents one penetrance matrix of breast cancer, sarcoma, other cancers, and death, respectively. See lfspenet.cs for details.

age

The age when the individual is still healthy.

Value

The likelihood (Pr(D|G)) for the un-affected individual at 'age' years old. G, genotype, can be TP530 (wild type), TP531 (one allele of TP53 mutated) and TP532 (both alleles of TP53 mutated).