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| nadiv-package | Functions to construct (non)additive genetic relatedness matrices and facilitate animal model analyses |
| aic | Akaike Information Criterion |
| aiCI | Confidence Intervals for Variance Components |
| aiFun | Sampling (co)variances |
| constrainFun | Function used in conjunction with others to produce a profile likelihood for a variance component |
| drfx | Simulated design random effects |
| FG90 | Pedigree, adapted from Table 1 in Fernando & Grossman (1990) |
| findDFC | Finds the double first cousins in a pedigree |
| genAssign | Generation assignment |
| ggcontrib | Genetic group contribution |
| grfx | Simulated genetic random effects |
| makeA | Creates the additive genetic relationship matrix |
| makeAA | Creates the additive by additive epistatic genetic relationship matrix |
| makeAinv | Creates the Inverse additive genetic relationship matrix |
| makeD | Creates the dominance genetic realationship matrix |
| makeDomEpi | Creates the additive by dominance and dominance by dominance epistatic genetic relationship matrices |
| makeDsim | Creates the dominance genetic relationship matrix through an iterative (simulation) process |
| makeS | Creates the additive genetic relationship matrix for the shared sex chromosomes |
| Mrode2 | Pedigree from Table 2.1 of Mrode (2005) |
| Mrode9 | Pedigree, adapted from example 9.1 of Mrode (2005) |
| nadiv | Functions to construct (non)additive genetic relatedness matrices and facilitate animal model analyses |
| numPed | Creates an integer format for a pedigree |
| parConstrainFun | Function used in the 'proLik' function to produce a profile likelihood for a variance component |
| pcc | REML convergence checks |
| pin | Approximate standard errors for linear functions of variance components |
| plot | Plot profile Likelihood |
| plot.proLik | Plot profile Likelihood |
| prepPed | Prepares a pedigree by sorting and adding 'founders' |
| proLik | Estimates the profile likelihood of a random effect |
| prunePed | Prunes a pedigree based on individuals with phenotypes |
| simPedDFC | Double first cousin pedigree construction |
| simPedHS | Half-sib pedigree construction |
| sm2list | Converts a sparse matrix into a three column format. |
| varTrans | Transforms ASReml-R gamma variances to component scale |
| warcolak | Pedigree and phenotypic values for a mythical population of Warcolaks |