Hi,
first of all, your example was not reproducible! But once I added
"library(igraph)" and "library(scico)" plus generally replaced
"aes_collapsed" by "edge_list", I started to work :-)
Anyway, the error is produced by this line:
+ edge.width= network,
It seems to me that you have forgotten to name a variable here (you now
use the whole network object as variable, which most probably won't
work).
Just as a kind advice for the future: if you encounter errors like
this, it is always a good idea to debug the problematic code by
commenting it out line by line. So you will - most probably - find our
those sections resulting in errors.
HTH,
Kimmo
la, 2024-02-24 kello 12:09 +0100, SIBYLLE STÖCKLI via R-help kirjoitti:
> Dear R-community
>
>
>
> It would be nice to get some input how to find a solution for the
> following
> error in igraph and vertex setting.
>
>
>
> Thank you very much
>
> Sibylle
>
>
>
> > par(bg="black")
>
> > network %>% plot(
>
> + vertex.color=clrs[V(.)$community],
>
> + vertex.size=V(.)$hub_score*1,
>
> + vertex.frame.color=V(.)$color,
>
> + vertex.label.color="white",
>
> + vertex.label.cex=0.5,
>
> + vertex.label.family="Helvetica",
>
> + vertex.label.font=1,
>
> + edge.curved=0.5,
>
> + edge.width= network,
>
> + layout=layout_with_mds(.))
>
> Error in intI(i, n = x@Dim[1], dn[[1]], give.dn = FALSE) :
>
> Index gr��er als maximales 6
>
>
>
>
>
> Reproducible example:
>
>
>
> edge_list<-read.csv("edges_table_Test.csv")
>
>
>
> #create network and add some necessary attributes (vertices) for the
> plot
>
> network <- graph_from_data_frame(aes_collapsed, directed= FALSE,
>
> vertices = details)
>
>
>
>
>
> temp<-cluster_optimal(network)
>
> temp<-cbind(membership=temp$membership, Names=temp$name)
>
> aes_collapsed <- aes_collapsed %>%
>
> merge(temp, by="Names")
>
>
>
>
>
> network <- network %>%
>
> set_edge_attr(name = "type", value = factor(aes_collapsed$Names,
>
> ordered =
> is.ordered(V(network)$name))) %>%
>
> set_edge_attr(name = "membership", value =
> aes_collapsed$membership) %>%
>
> set_edge_attr(name = "color",
>
> value = c(viridis::viridis(5))
>
> [match(E(.)$type, c(factor(V(.)$name)))]) %>%
>
> set_vertex_attr(name = "trans_v_net", value = c(transitivity(.,
> type =
> "local"))) %>%
>
> set_vertex_attr(name = "hub_score", value = c(hub_score(.)$vector))
> %>%
>
> set_vertex_attr(name = "color",
>
> value = c(viridis::viridis((5)))
>
> [match(V(.)$name, c(factor(V(.)$name)))]) %>%
>
> set_vertex_attr(name= "community",
> value=cluster_optimal(.)$membership)
>
>
>
> clrs<-scico(3, palette = "batlow")
>
>
>
> par(bg="black")
>
> network %>% plot(
>
> vertex.color=clrs[V(.)$community],
>
> vertex.size=V(.)$hub_score*5,
>
> vertex.frame.color=V(.)$color,
>
> vertex.label.color="white",
>
> vertex.label.cex=0.5,
>
> vertex.label.family="Helvetica",
>
> vertex.label.font=1,
>
> edge.curved=0.5,
>
> edge.width= network,
>
> layout=layout_with_mds(.))
>
>
>
>
>
> edges_table_Test.csv
>
>
>
>
> Names
>
> target
>
> weight
>
>
> B.B
>
> A.A
>
> 4
>
>
> C.C
>
> A.A
>
> 5
>
>
> D.D
>
> A.A
>
> 5
>
>
> E.E
>
> A.A
>
> 5
>
>
> F.F
>
> A.A
>
> 1
>
>
> C.C
>
> B.B
>
> 5
>
>
> E.E
>
> B.B
>
> 1
>
>
> F.F
>
> B.B
>
> 2
>
>
> A.A
>
> C.C
>
> 5
>
>
> B.B
>
> C.C
>
> 1
>
>
> D.D
>
> C.C
>
> 5
>
>
> E.E
>
> C.C
>
> 5
>
>
> F.F
>
> C.C
>
> 3
>
>
> A.A
>
> D.D
>
> 5
>
>
> B.B
>
> D.D
>
> 1
>
>
> C.C
>
> D.D
>
> 5
>
>
> E.E
>
> D.D
>
> 5
>
>
> F.F
>
> D.D
>
> 4
>
>
> A.A
>
> E.E
>
> 5
>
>
> B.B
>
> E.E
>
> 1
>
>
> C.C
>
> E.E
>
> 4
>
>
> D.D
>
> E.E
>
> 5
>
>
> F.F
>
> E.E
>
> 5
>
>
> A.A
>
> F.F
>
> 5
>
>
> B.B
>
> F.F
>
> 1
>
>
> C.C
>
> F.F
>
> 2
>
>
> D.D
>
> F.F
>
> 3
>
>
> E.E
>
> F.F
>
> 4
>
>
> F.F
>
> F.F
>
> 5
>
>
>
>
> [[alternative HTML version deleted]]
>
> ______________________________________________
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> and provide commented, minimal, self-contained, reproducible code.
______________________________________________
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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
