ped_graph: Input for igraph

In purgeR: Inbreeding-Purging Estimation in Pedigreed Populations

Input for igraph

Description

Processes a pedigree into a list with two objects, one dataframe of edges, and a dataframe of vertices, which can be used as input for functions of the igraph package.

Usage

ped_graph(ped)

Arguments

ped	A dataframe containing the pedigree. Individual (id), maternal (dam), and paternal (sire) identities are mandatory columns.

Value

A list with one dataframe 'edges' and another 'vertices', each following igraph format.

The 'edges' dataframe will contain two columns in addition to the defaults "from" and "to": 1) 'from_parent' indicates whether the vertex from which the edge originates represents a mother ("dam") or a father ("sire"). 2) 'to_parent' indicates whether the vertex to which the edge is directed represents a mother ("dam"), father ("sire") or none ("NA").

See Also

ped_rename, graph_from_data_frame

Examples

data(atlas)
atlas_graph <- ped_graph(atlas)
G <- igraph::graph_from_data_frame(d = atlas_graph$edges,
                                   vertices = atlas_graph$vertices,
                                   directed = TRUE)

purgeR documentation built on Aug. 16, 2023, 9:07 a.m.