How to get node names from the dataset not like 1,2,3

[akib62]

I have a df containing 3 columns ( from, to, new_ssp ). The from and to columns are the node and the new_ssp is the score/weight column. The range of the new_ssp is from 0 to 1.

The node name is fully different in my dataset like (IDxx, FID_XX), etc, When I am running the code, I am getting output which containing the node names like (1,2,3,4) below one!

My dataset looks like

                              from  to    new_ssp
1                           ID00104 ID09099 0.92582160
2 ID00925 _ SID13505 _ Taraxerol DB00104 0.07857143

My code

graph_datset <- df
graph_build <- graph_from_data_frame(graph_datset, directed = FALSE)
E(graph_build)$weight <- graph_datset$new_ssp
plot(graph_build, vertex.label = V(graph_build)$name)

# Calculating New link prediction using 'linkprediction'
  proxfun(graph_build, method="cos", value="matrix")

Generated output look likes

  1        2        3
1 0 0.000000 0.000000
2 0 0.000000 1.442695
3 0 1.442695 0.000000

Now the problem is

1. Is it possible to get the output node names from the dataset instead of 1/2/3? Because, this is very difficult for me to match my input node name and output node name!
2. I have found, when I am using only 2 columns from and to I am getting the same output at the time of 3 columns from, to, and score/weight. Is it possible to use weight and take this weight to calculate the link prediction? Because, the weight must have some significance to predict the new link.

[pieterjanvc]

Hi,

If this matrix contains all vertices, I suppose the row and column names would be V(graph_build)$name right?

PJ

[akib62]

Hello,
Thank you. Yes, but the problem is, when I am running this line of the code

@akib62

proxfun(graph_build, method="cos", value="matrix")

I am getting 1/2/3 not from my dataset node name!

@akib62

  1        2        3
1 0 0.000000 0.000000
2 0 0.000000 1.442695
3 0 1.442695 0.000000