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Question: Goseq package in R:getting terms after using getgo
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gravatar for javier.mendoza
20 months ago by
javier.mendoza0 wrote:

I have a simple gene vector and trying to get the GO terms using the goseq package from Bioconductor in R.

In this example just one gene:

    > unique(d$genes[1])
    > [1] "SMARCC1"
    
    > head(stack(getgo(unique(d$genes[1]),'hg19','geneSymbol',fetch.cats=c("GO:BP"))))

          values     ind
    1 GO:0006139 SMARCC1
    2 GO:0006325 SMARCC1
    3 GO:0006333 SMARCC1
    4 GO:0006337 SMARCC1
    5 GO:0006338 SMARCC1
    6 GO:0006351 SMARCC1

 

Now that I have the GO numbers, is there a way to get the GO terms? That is the exact biological process?

I saw this [post][1] which somehow had the GO terms after for each GO value, but I couldn't figure out where he got them.

  [1]: Print to txt file in specific way

ADD COMMENTlink written 20 months ago by javier.mendoza0
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