warcolak: Pedigree and phenotypic values for a mythical population of...
In nadiv: Functions to construct non-additive genetic relatedness matrices
Description
Usage
Format
Details
References
Description
A two trait example pedigree from the three generation breeding design of Fairbairn & Roff (2006) with two un-correlated traits.
Usage
1
Format
A data frame with 5400 observations on the following 5 variables.
ID a factor specifying 5400 unique individual IDs
Dam a factor specifying the unique ID for each dam
Sire a factor specifying the unique ID for each sire
sex a vector specifying '0' if the individual is a male and '1' if it is a female
trait1 a numeric vector of phenotypic values
trait2 a numeric vector of phenotypic values
Details
Unique sets of relatives are specified (Fairbairn & Roff, 2006) for a three generation breeding design. Each set contains 72 individuals. This pedigree reflects an experiment which produces 75 of these basic sets from Fairbairn & Roff's design.
The dataset was simulated to have a two un-correlated traits with different genetic architectures. The additive genetic, dominance genetic, and environmental (or residual) variances for both trait1 and trait2 are specified to be 0.4, 0.3, & 0.3, respectively. However, the additive genetic variance for trait2 can be further decomposed to autosomal additive genetic variance (0.3) and X-linked additive genetic variance (0.1). These variances were drawn from multivariate random normal distributions [e.g., additive effects: N ~ (0, A * Va)] with means of zero and variances equal to the product of the desired and the relatedness (or incidence) matrix. Because of this, the actual variance in random effects will vary slightly from the amount specified in the simulation.
References
Fairbairn, D.J. & Roff, D.A. 2006. The quantitative genetics of sexual dimorphism: assessing the importance of sex-linkage. Heredity 97, 319-328.
nadiv documentation built on May 2, 2019, 4:55 p.m.
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Description Usage Format Details References
Description
A two trait example pedigree from the three generation breeding design of Fairbairn & Roff (2006) with two un-correlated traits.
Usage
1 |
Format
A data frame with 5400 observations on the following 5 variables.
IDa factor specifying 5400 unique individual IDs
Dama factor specifying the unique ID for each dam
Sirea factor specifying the unique ID for each sire
sexa vector specifying '0' if the individual is a male and '1' if it is a female
trait1a numeric vector of phenotypic values
trait2a numeric vector of phenotypic values
Details
Unique sets of relatives are specified (Fairbairn & Roff, 2006) for a three generation breeding design. Each set contains 72 individuals. This pedigree reflects an experiment which produces 75 of these basic sets from Fairbairn & Roff's design.
The dataset was simulated to have a two un-correlated traits with different genetic architectures. The additive genetic, dominance genetic, and environmental (or residual) variances for both trait1 and trait2 are specified to be 0.4, 0.3, & 0.3, respectively. However, the additive genetic variance for trait2 can be further decomposed to autosomal additive genetic variance (0.3) and X-linked additive genetic variance (0.1). These variances were drawn from multivariate random normal distributions [e.g., additive effects: N ~ (0, A * Va)] with means of zero and variances equal to the product of the desired and the relatedness (or incidence) matrix. Because of this, the actual variance in random effects will vary slightly from the amount specified in the simulation.
References
Fairbairn, D.J. & Roff, D.A. 2006. The quantitative genetics of sexual dimorphism: assessing the importance of sex-linkage. Heredity 97, 319-328.
R Package Documentation
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We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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