[BioC] annotation file and expression set genechip miRNA 2 array

[Sean Davis]

Hi, Attia.

I'm guessing that you want to put your data into the featureData slot.
 You might take a look at the Biobase vignette about ExpressionSets
and also the fData() method.

Sean


On Fri, Oct 21, 2011 at 8:10 AM, Attia [guest] <guest at bioconductor.org> wrote:
>
> Hi Sean
> Thanks for your response but  I did not get how does it work  after I use read.table to read the annotation file in to a data frame
> For miRNA 2.0 Array  annotation file  from affymatrix siteFOR my miRna data
> spleen.affy = ReadAffy()
> sprma<-rma(spleen.affy)
> pData(spleen.affy)[,1]<-c("N","N","N","P","P","P","P","P","P","N","N","N")
>
> exprs(sprma)
> here I want to apply annotation file read in data frame
> to  my data how to go about it
> thanks
>
>  -- output of sessionInfo():
>
>> sessionInfo()
> R version 2.13.1 (2011-07-08)
> Platform: x86_64-pc-mingw32/x64 (64-bit)
>
> locale:
> [1] LC_COLLATE=English_Ireland.1252  LC_CTYPE=English_Ireland.1252
> [3] LC_MONETARY=English_Ireland.1252 LC_NUMERIC=C
> [5] LC_TIME=English_Ireland.1252
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> other attached packages:
> [1] mirna20cdf_2.8.0 affy_1.30.0      Biobase_2.12.2
>
> loaded via a namespace (and not attached):
> [1] affyio_1.20.0         preprocessCore_1.14.0 tools_2.13.1
>>
>
>
> --
> Sent via the guest posting facility at bioconductor.org.
>
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