WGCNA error help

Question

[Azhar]

I have two files for two diff conditions having lncRNA and mRNA expression values combined in each file i want to make interaction networks when i go through example it owrks well but when i use my data sample it gives several errors and problem like

1.

> sft = pickSoftThreshold(datExpr, powerVector = powers, verbose = 5)
pickSoftThreshold: will use block size 773.
 pickSoftThreshold: calculating connectivity for given powers...
   ..working on genes 1 through 773 of 57862
Error in { : task 1 failed - "'x' has a zero dimension."
> # Plot the results:
> sizeGrWindow(9, 5)


2.Error in plot(sft$fitIndices[, 1], -sign(sft$fitIndices[, 3]) * sft$fitIndices[,  : 
  object 'sft' not found
> text(sft$fitIndices[,1], -sign(sft$fitIndices[,3])*sft$fitIndices[,2],
+      labels=powers,cex=cex1,col="red");
Error in text(sft$fitIndices[, 1], -sign(sft$fitIndices[, 3]) * sft$fitIndices[,  : 
  object 'sft' not found

3Error in file(file, "rt") : cannot open the connection
In addition: Warning message:
In file(file, "rt") :
  cannot open file 'GeneAnnotation.csv': No such file or directory

.4.Error in exportNetworkToCytoscape(modTOM, edgeFile = paste("CytoscapeInput-edges-",  : 
  Cannot determine node names: nodeNames is NULL and adjMat has no dimnames.

[WouterDeCoster]

The error originates in pickSoftThreshold(). Make sure that datExpr and powers are the objects you expect them to be. In addition, using WGCNA as a tag for your question would make sense. I'm also not sure why your question would be urgent (or more urgent than other questions).

[Azhar]

urgent means as soon as possible its just a request any how thanks for reply can you please guide me if I don't want to use clinical data how I can modify this WGCNA code for network construction for simple data file and what is meant by

-x has no dimension error

I am running the code as it is just changing the file name so this error appears

[Ram]

I've removed the term "urgent" from your question. Please do not use words like "urgent" or "emergency" - they don't help your case.