Figure 6.12 A simple graph drawn nine different ways

figures

code

The main difference here is that the output is in colour, which might make it easier to see what’s going on.

Code

library(igraph)
library(dplyr)
library(RColorBrewer)
library(ggplot2)

Code

plot_graph <- function(G, main = "", layout = layout.grid(G), 
                       vertex.color = "black") {
  plot(G, main = main,
       layout = layout, 
       vertex.label = NA, vertex.color = vertex.color, vertex.size = 5, 
       vertex.shape = "circle", vertex.frame.width = 0, 
       edge.color = "black", edge.width = 0.5)
}

Code

the_graph <- make_lattice(length = 20, dim = 2, nei = 1)
the_graph <- rewire(the_graph, each_edge(1/400))
vertex_attr(the_graph, 'centrality') <- centralization.closeness(the_graph)$res

# make a bespoke colour for each vertex based on centrality
base_pal <- brewer.pal(11, 'RdYlBu')
pal = colorRampPalette(base_pal)
graphCol = pal(500)[as.numeric(cut(V(the_graph)$centrality, breaks = 500))]

par(mar = rep(1, 4))
layout(matrix(1:9, 3, 3, byrow = TRUE))

plot_graph(the_graph, layout = layout_randomly(the_graph), vertex.color = graphCol)
plot_graph(the_graph, layout = layout.circle(the_graph), vertex.color = graphCol)
plot_graph(the_graph, layout = layout_with_mds(the_graph), vertex.color = graphCol)
plot_graph(the_graph, layout = layout_as_tree(the_graph), vertex.color = graphCol)
plot_graph(the_graph, vertex.color = graphCol)
plot_graph(the_graph, layout = layout_as_tree(the_graph, circular = TRUE), vertex.color = graphCol)
plot_graph(the_graph, layout = layout.kamada.kawai(the_graph), vertex.color = graphCol)
plot_graph(the_graph, layout = layout.drl(the_graph), vertex.color = graphCol)
plot_graph(the_graph, layout = layout.fruchterman.reingold(the_graph), vertex.color = graphCol)

Code

# License (MIT)
#
# Copyright (c) 2023 David O'Sullivan
#
# Permission is hereby granted, free of charge, to any person
# obtaining a copy of this software and associated documentation
# files (the "Software"), to deal in the Software without restriction,
# including without limitation the rights to use, copy, modify, merge,
# publish, distribute, sublicense, and/or sell copies of the Software,
# and to  permit persons to whom the Software is furnished to do so,
# subject to the following conditions:
#
# The above copyright notice and this permission notice shall be included
# in all copies or substantial portions of the Software.
#
# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS
# OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL
# THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
# FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
# DEALINGS IN THE SOFTWARE.