[BioC] TopGO 0 nontrivial nodes

[Dario Strbenac]

Hello,

I don't understand why TopGO wouldn't work with gene symbols

GOdata <- new("topGOdata", ontology = GOcategory, allGenes = allGenes, annotationFun = annFUN.org, nodeSize = 10, mapping = "org.Hs.eg.db", ID = "symbol")

test <- new("classicCount", testStatistic = GOFisherTest)
testResult <- getSigGroups(GOdata, test)

Gives as a result :

			 -- Classic Algorithm -- 

		 the algorithm is scoring 0 nontrivial nodes
		 parameters: 
			 test statistic:   

Note that allGenes is 


I have topGO_2.12.0 and R 3.0.1

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Dario Strbenac
PhD Student
University of Sydney
Camperdown NSW 2050
Australia