Hi Jaana,

  You can find all the R script of the Vignette in the doc sub-directory of
the lumi package.
For example, the R script of lumi.pdf is included in the lumi.R file.
 
You can find the directory by typing the following command in the R console:
     system.file('doc', package='lumi')

Tell me if there is anything unclear.


Pan


On 3/2/09 1:46 PM, "Jaana Hartiala" <hartiala@usc.edu> wrote:

> Dr. Du,
> I'm reading the "Using lumi, a package processing Illumina Microarray" and I
> noticed one the of R-codes (for Figure 13) is missing the last part on page
> 19:
>> > ## compare the log2 and VST transform
>> > matplot(log2(trans$untransformed), trans$transformed, main='compare VST and
>> log2 transform',
> 
> Would you be kind enough to advise what the complete code should be?
> 



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