Package index

Core Functions

Main tools for processing and visualizing animal pedigrees.

tidyped()

Tidy and prepare a pedigree using graph theory

visped()

Visualize a tidy pedigree

splitped()

Split Pedigree into Disconnected Groups

Relationship Matrices

Tools for computing and analyzing genetic relationship matrices.

pedmatrix()

Genetic Relationship Matrices and Inbreeding Coefficients

expand_pedmatrix()

Expand a Compact Pedigree Matrix to Full Dimensions

query_relationship()

Query Relationship Coefficients from a Pedigree Matrix

vismat()

Visualize Relationship Matrices

Pedigree Analysis

Functions for genealogical and genetic computations.

inbreed()

Calculate inbreeding coefficients

Datasets

Built-in pedigree examples for testing and demonstration.

big_family_size_ped

A large pedigree with big family sizes

deep_ped

A deep pedigree

loop_ped

A pedigree with loops

simple_ped

A simple pedigree

small_ped

A small pedigree

S3 Methods

Generic methods for ‘tidyped’ and ‘pedmatrix’ objects.

plot(<tidyped>)

Plot a tidy pedigree

summary(<tidyped>)

Summary method for tidyped objects

summary_pedmatrix()

Summary Statistics for Pedigree Matrices

print(<summary.tidyped>)

Print method for summary.tidyped

print(<tidyped>)

Print method for tidyped pedigree

diag()

Extract Matrix Diagonals