Re: [igraph] Help with layout and position in igraph.

[Augusto Ribas]

Yesssss, thank you a lot.

Below are the code with the effect i wanted.

Thanks for the patience, i'm new to igraph so i still don't understand things pretty well.

But thanks a lot for the help :)

Best wishes 

Augusto Ribas

############################################################################

library(ape)

library(igraph)

set.seed(15)

pol.s<-paste("Polinizador",1:5)

flor.s<-paste("Flor",1:5)

dados<-data.frame(pol=sample(pol.s,15,replace=T),flor=sample(flor.s,15,replace=T))

dados.g <-graph.data.frame(unique(dados), directed=F)

posicao<-matrix(c(rep(c(4,8),each=5),rep(1:5,2)),ncol=2,nrow=10)

plot(rtree(5),show.tip.label=F,use.edge.length = F,edge.width = 2,x.lim=c(0,10))

plot(dados.g, layout=posicao,vertex.color=rep(c("green","yellow"),each=5),vertex.size=35,

     vertex.label=NA,edge.color="black",edge.width=3,add=T,rescale=F)

axis(1)

axis(2)

##################################################################################

2014-03-19 18:29 GMT-04:00 Gábor Csárdi <address@hidden>:

On Wed, Mar 19, 2014 at 5:47 PM, Augusto Ribas <address@hidden> wrote:

Hello.

I'm trying to combine 2 plots, a phylogeny and a network.
but i'm having a little problem.

I would like use the plot method of igraph as an add to another plot with (add=T).

The igraph plot function centralize the coordinates in and limits the plot between 1 and -1, both for x and y axis, as seen in figure 2 in the code bellow, how do i disable this feature, for example, when i create the matrix posicao with the positions that i desire for the vertices(nodes), when i say vertice 1 to be at x=1 and y=1, it really be there, and not be recalculated to stay between -1 and 1.

[...]

rescale

Logical constant, whether to rescale the coordinates to the [-1,1]x[-1,1](x[-1,1]) interval. This parameter is not implemented for tkplot.

Defaults to TRUE, the layout will be rescaled.

[...]

http://igraph.org/r/doc/plot.common.html

Gabor

 

So i could extract the positions that i desire for another plot and establish the layout the is good for me to add to a existing plot.

There is a sample code bellow.

Well that is it. Thanks for the attention everyone and congratulations on this amazing package for graphs.

Sample code

#packages
library(ape)
library(igraph)


#generate some data
set.seed(15)
pol.s<-paste("Polinizador",1:5)
flor.s<-paste("Flor",1:5)
dados<-data.frame(pol=sample(pol.s,15,replace=T),flor=sample(flor.s,15,replace=T))

dados.g <-graph.data.frame(unique(dados), directed=F)

#position matrix, each line is the position of a vertice(node)
posicao<-matrix(c(rep(1:2,each=5),rep(1:5,2)),ncol=2,nrow=10)


#Figure 1
plot(rtree(5),show.tip.label=F,use.edge.length = F,edge.width = 2)
axis(1)
axis(2)

#figure 2
plot(dados.g, layout=posicao+1,vertex.color=rep(c("green","yellow"),each=5),
vertex.shape=rep(c("square","circle"),each=5),vertex.size=35,
vertex.label=c(paste("Pol",1:5),paste("Flor",1:5)),edge.color="black",
edge.width=3)
axis(1)
axis(2)


#figure 3
#i would like to glues these two guys, but i need to better control the arguments
#and i dont know how :(
plot(rtree(5),show.tip.label=F,use.edge.length = F,edge.width = 2)
par(new=T)
plot(dados.g, layout=posicao,vertex.color=rep(c("green","yellow"),each=5),
vertex.shape=rep(c("square","circle"),each=5),vertex.size=35,
vertex.label=c(paste("Pol",1:5),paste("Flor",1:5)),edge.color="black",
edge.width=3,add=T)

--

Grato
Augusto C. A. Ribas

 

Site Pessoal: http://recologia.com.br/

Github: https://github.com/Squiercg

Lattes: http://lattes.cnpq.br/7355685961127056

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--

Grato
Augusto C. A. Ribas

 

Site Pessoal: http://recologia.com.br/

Github: https://github.com/Squiercg

Lattes: http://lattes.cnpq.br/7355685961127056