Question: Goseq package in R:getting terms after using getgo
gravatar for javier.mendoza
23 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 23 months ago by javier.mendoza0
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.2.0
Traffic: 168 users visited in the last hour