Random Generation of MVN Breeding Values and Phylogenetic Effects

Share:

Description

Random Generation of MVN Breeding Values and Phylogenetic Effects

Usage

1
rbv(pedigree, G, nodes="ALL", scale=TRUE, ggroups=NULL, gmeans=NULL)

Arguments

pedigree

ordered pedigree with 3 columns id, dam and sire or a phylo object.

G

(co)variance matrix

nodes

effects for pedigree/phylogeny nodes to be returned. The default, nodes="ALL" returns effects for all individuals in a pedigree or nodes in a phylogeny (including ancestral nodes). For phylogenies nodes="TIPS" returns effects for the tips only, and for pedigrees a vector of ids can be passed to nodes specifying the subset of individuals for which animal effects are returned.

scale

logical: should a phylogeny (needs to be ultrametric) be scaled to unit length (distance from root to tip)?

ggroups

optional; vector of genetic groups

gmeans

matrix of mean breeding value for genetic groups (rows) by traits (columns)

Value

matrix of breeding values/phylogenetic effects

Author(s)

Jarrod Hadfield j.hadfield@ed.ac.uk

Examples

1
2
data(bird.families)
bv<-rbv(bird.families, diag(2))

Want to suggest features or report bugs for rdrr.io? Use the GitHub issue tracker.