estimate_gen_liability_ltfh: Estimate genetic liability similar to LT-FH

In LTFHPlus: Implementation of LT-FH++

Estimate genetic liability similar to LT-FH

Description

Estimate genetic liability similar to LT-FH

Usage

estimate_gen_liability_ltfh(
  h2,
  phen,
  child_threshold,
  parent_threshold,
  status_col_offspring = "CHILD_STATUS",
  status_col_father = "P1_STATUS",
  status_col_mother = "P2_STATUS",
  status_col_siblings = "SIB_STATUS",
  number_of_siblings_col = "NUM_SIBS",
  tol = 0.01
)

Arguments

h2	Liability scale heritability of the trait being analysed.
phen	tibble or data.frame with status of the genotyped individual, parents and siblings.
child_threshold	single numeric value that is used as threshold for the offspring and siblings.
parent_threshold	single numeric value that is used as threshold for both parents
status_col_offspring	Column name of status for the offspring
status_col_father	Column name of status for the father
status_col_mother	Column name of status for the mother
status_col_siblings	Column name of status for the siblings
number_of_siblings_col	Column name for the number of siblings for a given individual
tol	Convergence criteria of the Gibbs sampler. Default is 0.01, meaning a standard error of the mean below 0.01

Value

Returns the estimated genetic liabilities.

Examples

phen <- data.frame(
CHILD_STATUS = c(0,0),
P1_STATUS = c(1,1),
P2_STATUS = c(0,1),
SIB_STATUS = c(1,0),
NUM_SIBS = c(2,0))

h2 <- 0.5
child_threshold <- 0.7
parent_threshold <- 0.8

estimate_gen_liability_ltfh(h2, phen, child_threshold, parent_threshold)

LTFHPlus documentation built on June 8, 2025, 11:47 a.m.