extractLayout {NAIR}

Get Coordinate Layout From Graph Plot

Description

Given a ggraph plot, extract the coordinate layout of the graph nodes as a two-column matrix.

Usage

extractLayout(plot)

Arguments

plot

An object of class ggraph.

Details

Equivalent to as.matrix(plot$data[c("x", "y")]).

Value

A matrix with two columns and one row per network node. Each row contains the Cartesian coordinates of the corresponding node.

Author(s)

Brian Neal ([e-mail])

References

Hai Yang, Jason Cham, Brian Neal, Zenghua Fan, Tao He and Li Zhang. (2023). NAIR: Network Analysis of Immune Repertoire. Frontiers in Immunology, vol. 14. doi: 10.3389/fimmu.2023.1181825

Webpage for the NAIR package

Examples

set.seed(42)
toy_data <- simulateToyData()
net <- buildRepSeqNetwork(toy_data, "CloneSeq", print_plots = TRUE)

my_layout <- extractLayout(net$plots[[1]])

# same as `graph_layout` element in the plot list
all.equal(my_layout, net$plots$graph_layout, check.attributes = FALSE)