[BioC] RMA/QuantileNormalization results difference between oligo and aroma.affymetrix for Hugene
Mikhail Pachkov
pachkov at gmail.com
Mon Mar 1 17:50:16 CET 2010
On Mon, Mar 1, 2010 at 12:06 PM, Benilton Carvalho
<beniltoncarvalho at gmail.com> wrote:
> my bad... that's a mod that never made it to the code... in the
> meantime, can you please run the following bit once (which will set
> probeNames and after which everything will be fine):
>
> setMethod("probeNames", "GeneFeatureSet",
> function(object, subset=NULL){
> res <- dbGetQuery(db(object), "SELECT fsetid FROM
> pmfeature")[[1]]
> as.character(res)
> })
That works. Thank you! However I need both fsetid and fid so I tried
to modify the method a little:
setMethod("probeNames", "GeneFeatureSet",
function(object, subset=NULL){
res <- dbGetQuery(db(object), "SELECT fid,fsetid FROM
pmfeature")
paste(res[,1],res[,2])
})
Could you tell me if that is correct way to get fid, fsetid pairs for pms?
Thank you in advance.
Best regards,
Mikhail
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