getAddOffset: Retrieve additive offset.

In epinetr: Epistatic Network Modelling with Forward-Time Simulation

Retrieve additive offset.

Description

Retrieve offset used for calculating additive component.

Usage

getAddOffset(pop)

Arguments

pop	A valid Population object with additive effects attached

Details

In order for the initial population to have an additive component with a mean of 0 for its phenotype, an offset is added, and it remains fixed across generations. This function retrieves that offset.

Value

The additive offset is returned.

Author(s)

Dion Detterer, Paul Kwan, Cedric Gondro

See Also

getAddCoefs, addEffects

Examples

# Construct a new population with additive effects
pop <- Population(
  popSize = 20, map = map100snp, QTL = 20,
  broadH2 = 0.4, narrowh2 = 0.4, traitVar = 40,
  alleleFrequencies = runif(100, 0.05, 0.5)
)
pop <- addEffects(pop)

# Find the additive contribution to the individuals' phenotypes
hap <- getHaplo(pop)
hap <- (hap[[1]] + hap[[2]])[, getQTL(pop)$Index]
(hap %*% getAddCoefs(pop))[, 1] + getAddOffset(pop)

# Compare with additive component from getComponents()
getComponents(pop)$Additive

epinetr documentation built on March 18, 2022, 7:01 p.m.