Nothing
## ----include = FALSE----------------------------------------------------------
knitr::opts_chunk$set(
collapse = TRUE,
comment = "#>",
fig.align = "center",
fig.width = 7,
fig.height = 7
)
## ----load_libs,message=FALSE,warning=FALSE------------------------------------
library(igraph)
library(ggraph)
library(graphlayouts)
## ----example------------------------------------------------------------------
set.seed(666)
pa <- sample_pa(1000,1,1,directed = F)
ggraph(pa,layout = "stress")+
geom_edge_link0(width = 0.2,colour = "grey")+
geom_node_point(color = "black",size = 0.3)+
theme_graph()
## ----example_un---------------------------------------------------------------
set.seed(666)
g <- disjoint_union(
sample_pa(10,directed = F),
sample_pa(20,directed = F),
sample_pa(30,directed = F),
sample_pa(40,directed = F),
sample_pa(50,directed = F),
sample_pa(60,directed = F),
sample_pa(80,directed = F)
)
ggraph(g, layout = "stress",bbox = 40) +
geom_edge_link0() +
geom_node_point() +
theme_graph()
## ----hairball,eval = TRUE-----------------------------------------------------
set.seed(665)
#create network with a group structure
g <- sample_islands(9,40,0.4,15)
g <- simplify(g)
V(g)$grp <- as.character(rep(1:9,each=40))
ggraph(g,layout = "stress")+
geom_edge_link0(colour = rgb(0,0,0,0.5),width = 0.1)+
geom_node_point(aes(col = grp))+
scale_color_brewer(palette = "Set1")+
theme_graph()+
theme(legend.position = "none")
## ----install_oaqc, eval=FALSE-------------------------------------------------
# install.packages("oaqc")
## ----backbone,eval=TRUE-------------------------------------------------------
bb <- layout_as_backbone(g,keep=0.4)
E(g)$col <- F
E(g)$col[bb$backbone] <- T
ggraph(g,layout = "manual",x = bb$xy[,1],y = bb$xy[,2])+
geom_edge_link0(aes(color = col),width = 0.1)+
geom_node_point(aes(color = grp))+
scale_color_brewer(palette = "Set1")+
scale_edge_color_manual(values = c(rgb(0,0,0,0.3),rgb(0,0,0,1)))+
theme_graph()+
theme(legend.position = "none")
## ----flex_focus,eval=TRUE-----------------------------------------------------
karate <- make_graph("Zachary")
p1 <- ggraph(karate,layout = "focus",focus = 1) +
draw_circle(use = "focus",max.circle = 3)+
geom_edge_link0(edge_color="black",edge_width=0.3)+
geom_node_point(fill="grey25", size=2,shape=21)+
scale_fill_manual(values=c("#8B2323", "#EEAD0E"))+
theme_graph()+
theme(legend.position = "none")+
coord_fixed()+
labs(title= "Focus on Mr. Hi")
p2 <- ggraph(karate,layout = "focus",focus = 34) +
draw_circle(use = "focus",max.circle = 4)+
geom_edge_link0(edge_color="black",edge_width=0.3)+
geom_node_point(fill="grey25",size=2,shape=21)+
scale_fill_manual(values=c("#8B2323", "#EEAD0E"))+
theme_graph()+
theme(legend.position = "none")+
coord_fixed()+
labs(title= "Focus on John A.")
p1
p2
## ----flex_cent----------------------------------------------------------------
bc <- betweenness(karate)
p1 <- ggraph(karate,layout = "centrality", centrality = bc, tseq = seq(0,1,0.15)) +
draw_circle(use = "cent") +
annotate_circle(bc,format="",pos="bottom") +
geom_edge_link0(edge_color="black",edge_width=0.3)+
geom_node_point(fill="grey25", size=2,shape=21)+
scale_fill_manual(values=c("#8B2323", "#EEAD0E"))+
theme_graph()+
theme(legend.position = "none")+
coord_fixed()+
labs(title="betweenness centrality")
cc <- closeness(karate)
p2 <- ggraph(karate,layout = "centrality", centrality = cc, tseq = seq(0,1,0.2)) +
draw_circle(use = "cent") +
annotate_circle(cc,format="scientific",pos="bottom") +
geom_edge_link0(edge_color="black",edge_width=0.3)+
geom_node_point(fill="grey25",size=2,shape=21)+
scale_fill_manual(values=c("#8B2323", "#EEAD0E"))+
theme_graph()+
theme(legend.position = "none")+
coord_fixed()+
labs(title="closeness centrality")
p1
p2
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