Get Coordinate Layout From Graph Plot

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.

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

Author

Brian Neal (Brian.Neal@ucsf.edu)

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)
#> [1] TRUE