Description Usage Arguments Value Author(s)
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 within the last nbottom generations of pedigree by eliminating fathers.
1 | simul.na.bottom(pedigree, pedigree0, lambda, B, data, model, nbottom)
|
pedigree |
A dataset containing the initial pedigree structure. It must have three columns: id, parent1, parent2. |
pedigree0 |
A dataset containing the initial pedigree structure. It must have five columns: id, parent1, parent2, sex, generation. |
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 inbreeding depression. |
nbottom |
An integer specifying the number of the last generations where to generate errors. |
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 |
Erica Ponzi
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