aracne2regulon fails

[saksham219]

viper::aracne2regulon(adj_file, e_data, verbose = T)

This fails with the following message "Error in postprobs[, w] : subscript out of bounds". The source of this error is the updateRegulon internal function which basically makes all elements of the S4 object as empty if the first element of the object in its input is NULL. This will be fairly common when all TFs in the adjacency file will not be found in the expression data. That is why this error is fairly common. This can be resolved by fixing the updateRegulon function. I can create a pull request for this. Thanks

[adminshuang]

have you solved the problem.I came across the same question and it so trapped me.Could you give some advice?

[saksham219]

I was not able to fix this, but I remember that there was a workaround. Since it was a long time ago I have lost context on the problem. Could you explain your problem a bit more?