ForceNetwork is not displayed, no code errors are returned
I create networkD3 forceNetwork (), but after I have cleared my env vars in RStudio, the network will not show up in my browser when I run the code a second time. Any idea why? There are no code errors. The Var output is below.
library(networkD3)
library(igraph)
setwd("C:\\Users\\King\\Desktop\\SNA_Rcode")
csv<-read.csv("C:\\Users\\King\\Desktop\\Analysis\\mc_with_0_and_MI.csv")
df<-data.frame(csv$stat.deaths,csv[,4],csv$stat.mob)#damage delt on deaths, mob kills (is color)
#2 mode. interactive model
#g1 <- simpleNetwork(df) ; htmltools::html_print(g1, viewer = utils::browseURL)#DISPLAYS CORRECTLY
df <- df[!duplicated(df[,2]),]
df[,2] <- paste("", df[,2], sep="")
#setup
g <- graph.data.frame(df,directed=F)
links<-as.data.frame(get.edgelist(g)) #set name to number so calculate link correctly
links$V1<-as.numeric(as.character(links$V1))
links$V2<-as.numeric(as.character(links$V2))
colnames(links)<-c("source","target")
link_list<-(links-1)
#######################DOESNT WORK LIKE EXPECTED......replaces NA with 2 instead of 999
color_groups<-df[,3]# color based on mob kills
color_groups <- ifelse(as.numeric(color_groups) < 10, 1,
ifelse(as.numeric(color_groups) >= 30, 3, 2))
color_groups[is.na(color_groups)]<-999 #replace NA with 999
names<-0:(length(color_groups)-1)
node_list <- data.frame(name=names, group=color_groups)
profanity<-forceNetwork(Links = link_list, Nodes = node_list,Source = "source", Target = "target", NodeID = "name",Group = "group", opacity = 0.8, colourScale = "d3.scale.category10()",charge=-100)
htmltools::html_print(profanity, viewer = utils::browseURL)
After running all the code (with a friendly env):
> head(link_list,20)
source target
1 6 1169
2 1 839
3 1 2594
4 7 5409
5 11 2719
6 5 1719
7 7 179
8 2 1989
9 4 3444
10 0 2249
11 1 1964
12 0 3344
13 6 4479
14 6 2224
15 7 3869
16 5 2459
17 3 1704
18 -1 2479
19 5 3494
20 4 1869
> head(node_list,20)
name group
1 0 2
2 1 1
3 2 2
4 3 3
5 4 1
6 5 2
7 6 1
8 7 2
9 8 2
10 9 2
11 10 1
12 11 2
13 12 2
14 13 2
15 14 2
16 15 2
17 16 2
18 17 2
19 18 2
20 19 2
I needed to set names for the vertices using:
V(g)$name<-1:104
after i initialized the graph (g)
In your vectors link_list$source
and link_list$target
there are indices that are not in yours node_list
, for example. -1
and 2249
... or the values in those vectors are not what they should be ...
Vectors source
and target
the dataframe Links
must have a numeric value, and their values are relative to the node index in the dataframe Nodes
they represent (zero indices as opposed to R because it is used by JavaScript code).