enrichGo problem
Hi, I am trying to use enrichGO to look at BP for a subset of genes of interest identified from my deseq2 analysis.
> genes <- c(rownames(X1))
# GO enrichment analysis
> ego <- enrichGO(gene = genes,
OrgDb = 'org.Ag.eg.db',
keyType = "ENSEMBL",
ont = "BP",
pvalueCutoff = 1)
But i get this error?
--> No gene can be mapped....
--> Expected input gene ID: AGAP006263,AGAP002919,AGAP002350
--> return NULL...
My gene id are in the same format as expected input genes. Basically just very confused as to why it isn't recognising the genes when they are in the correct format. I even set the p value cut off to basically non existant to just see if it was the relatively small number of genes i am considering but it didn't help. Thanks!
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Arup Ghosh
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mimijane1664 •
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mimijane1664 •
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Have you checked if any of those genes have GO terms? You can try using the GO ontology database.
Hiya, yes, they do have GO terms associated with them but thanks for the suggestion! I had already actually checked them using Panther but wanted to be able to plot this hence using the enrichGo etc.
Can you share some of the gene names from the
genesvector?