GPmap: Genotype-to-Phenotype Mapping

In noia: Implementation of the Natural and Orthogonal InterAction (NOIA) Model

Genotype-to-Phenotype Mapping

Description

The Genotype-to-Phenotype map is a vector providing the estimate of the genotypic value for any multi-locus genotype. The estimates may be computed from linearRegression or multilinearRegression.

Usage

GPmap(obj)

Arguments

obj	An object of class "noia.linear" or "noia.multilinear".

Value

Returns a matrix with two columns: the first one is the estimate of genotypic effects, the second one the standard error of this estimate.

Author(s)

Arnaud Le Rouzic

References

Le Rouzic A, Alvarez-Castro JM. (2008). Estimation of genetic effects and genotype-phenotype maps. Evolutionary Bioinformatics, 4.

See Also

linearRegression, multilinearRegression, genNames.

Examples

set.seed(123456789)

map <- c(0.25, -0.75, -0.75, -0.75, 2.25, 2.25, -0.75, 2.25, 2.25)
pop <- simulatePop(map, N=500, sigmaE=0.2, type="F2")

# Regression
linear <- linearRegression(phen=pop$phen, gen=cbind(pop$Loc1, pop$Loc2))

# GP map
GPmap(linear)

noia documentation built on March 31, 2023, 6:45 p.m.