simul.replace.similar: Simulation phase for P-SIMEX on inbreeding depression with...

Description Usage Arguments Value Author(s)

View source: R/simul.replace.similar.R

Description

The function generates increasing amount of errors to the pedigree structure and calculates inbreeding depression for each simulation. For each level of the error proportion, a number of simulation equal to B are repeated. Errors are generated by replacing fathers with the most similar individual from the same generation.

Usage

1
simul.replace.similar(pedigree, lambda, B,   data, model)

Arguments

pedigree

A dataset containing the initial pedigree structure. It must have three columns: id, parent1, parent2.

lambda

A vector of real numbers specifying the error proportion to be generated.

B

An integer specifying the number of simulations to be run for each error level.

data

A dataset containing the phenotypic measurements on the population and the covariates which are included in the model. The trait shoul be named differently than 'trait' (see MCMCglmm)

model

A object of class model used to calculate heritability.

Value

A list:

inb

A dataset containing all the simulated values for inbreeding depression

se_inb

A dataset containing all the simulated standard errors for inbreeding depression

pval

A dataset containing all the simulated p-values for inbreeding depression

mean_inb

A dataset containing all the simulated values for inbreeding coefficient mean

median_inb

A dataset containing all the simulated values for inbreeding coefficient median

var_inb

A dataset containing all the simulated values for inbreeding coefficient variance

Author(s)

Erica Ponzi


PSIMEX documentation built on May 2, 2019, 3:34 p.m.