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ggroups (version 1.3.0)

Pedigree and Genetic Groups

Description

Calculates additive and dominance genetic relationship matrices and their inverses, in matrix and tabular-sparse formats. It includes functions for checking and processing pedigree, as well as functions to calculate the matrix of genetic group contributions (Q), and adding those contributions to the genetic merit of animals (Quaas (1988) ). Calculation of Q is computationally extensive. There are computationally optimized functions to calculate Q.

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Install

install.packages('ggroups')

Monthly Downloads

217

Version

1.3.0

License

GPL-3

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Maintainer

Mohammad Ali Nilforooshan

Last Published

February 9th, 2020

Functions in ggroups (1.3.0)

Qgpu

Vector Qg + u
pedcheck

Basic pedigree checks
gghead

Append genetic groups to the pedigree
pedup

Upward pedigree extraction
peddown

Downward pedigree extraction
offspring

Descendants of an individual per generation
ggroups-package

Pedigree and genetic groups
inb

Inbreeding coefficient
buildA

Relationship matrix A
rg

Genetic relationship coefficient
qmatXL

Matrix Q for large pedigrees (parallel processing)
tabAinv

Inverse of the relationship matrix A in a tabular format
tabA

Relationship matrix A in a tabular format
mat2tab

Matrix to tabular
qmatL

Matrix Q for large pedigrees
pruneped

Pedigree pruning
renum

Pedigree renumbering
tab2mat

Tabular to matrix
tabDinv

Inverse of the dominance relationship matrix D in a tabular format
tabD

Dominance relationship matrix D in a tabular format