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Bipartite graph Error, I Graph, R

Hey, I used I Graph to creat a bipartite graph but I have an error

Error in UseMethod("$") : no applicable method for '$' applied to an object of class "igraph.vs"

the following is simple example to my code Suggestions ? Thnx

    library(igraph)

# My matrix containing PPI 
m = matrix(data = sample(0:1, 16, replace = TRUE), nrow = 4, ncol = 4)
colnames(m) = c("LRRK2","LRRK2", "BAG5", "BAG5")
rownames(m) = c("BAG5", "HSPA8", "HSPA8", "GAK")

# Convert it to a bipartitie network
bg = igraph::graph.incidence(m)

# See the vertex attributes 
V(bg)$type 
V(bg)$name

# Plot the network
shape = ifelse(V(bg)$type, "circle", "square") # assign shape by node type
col = ifelse(V(bg)$type, "red", "yellow") # assign color by node type

plot(bg, vertex.shape = shape, vertex.color = col)
r i graph network programming
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written by Pluto • Pluto

1 answer

Runs without error on my machine.

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written by ATpoint ATpoint

I do not understand the Error

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written by Pluto • Pluto

I cannot reproduce it. I suggest you update igraph to the most recent version, restart the entire R session and try to rerun everything. Maybe something strange straying in your environment, I do not know.

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written by ATpoint ATpoint

Neither any error, here:

fff

Please restart your R session for each new analysis. If that still does not work, then paste (here) the output of sessionInfo()

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written by Kevin Blighe Kevin Blighe

I tried all of that without output then tried R cloud and it was Ok Anyway thanks a lot

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written by Pluto • Pluto

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