[BioC] RMA/QuantileNormalization results difference between oligo and aroma.affymetrix for Hugene

[Mikhail Pachkov]

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