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Question: Error with the tutorial for the WGCNA package
1
gravatar for yepingsun80
3 months ago by
yepingsun8010
yepingsun8010 wrote:

Dear all, 

I am trying the tutorial of WGCNA in R-3.4.4. Everything seemed OK untill I try this command:

     GOenr = GOenrichmentAnalysis(moduleColors, allLLIDs, organism = "mouse", nBestP = 10)

It gives the following error:

     Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : Object 'Ontology' not found

Did you experience the same probem and could you tell me how to solve it?

Thanks in advance.

Arthur Sun 

 

ADD COMMENTlink modified 3 months ago by Peter Langfelder1.5k • written 3 months ago by yepingsun8010
0
gravatar for Peter Langfelder
3 months ago by
United States
Peter Langfelder1.5k wrote:

Thanks for the bug report, I will fix this in the next WGCNA update. In the meantime, I suggest you take a look at the anRichment package (https://labs.genetics.ucla.edu/horvath/htdocs/CoexpressionNetwork/GeneAnnotation/) which provides a replacement for GOenrichmentAnalysis. Please look through the tutorial before attempting the analysis as the logic and the function names are somewhat different.

Peter

ADD COMMENTlink written 3 months ago by Peter Langfelder1.5k
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