lik_noSex: Likelihood Calculation without Sex Differentiation

In penetrance: Methods for Penetrance Estimation in Family-Based Studies

Likelihood Calculation without Sex Differentiation

Description

This function calculates the likelihood for an individual based on Weibull distribution parameters without considering sex differentiation.

Usage

lik_noSex(
  i,
  data,
  alpha,
  beta,
  delta,
  gamma,
  max_age,
  baselineRisk,
  BaselineNC,
  prev
)

Arguments

i	Integer, index of the individual in the data set.
data	Data frame, containing individual demographic and genetic information. Must include columns for 'age', 'aff' (affection status), and 'geno' (genotype).
alpha	Numeric, Weibull distribution shape parameter.
beta	Numeric, Weibull distribution scale parameter.
delta	Numeric, shift parameter for the Weibull function.
gamma	Numeric, asymptote parameter (only scales the entire distribution).
max_age	Integer, maximum age considered in the analysis.
baselineRisk	Numeric vector, baseline risk for each age.
BaselineNC	Logical, indicates if non-carrier penetrance should be based on SEER data or the calculated non-carrier penetrance.
prev	Numeric, prevalence of the risk allele in the population.

Value

Numeric vector, containing likelihood values for unaffected and affected individuals.

penetrance documentation built on April 4, 2025, 12:29 a.m.