[BioC] Pairs plots in lumi, plots look different?
Matthias.Kohl at stamats.de
Wed May 7 12:41:48 CEST 2008
the default pairs plot uses a random subset of the data
pairs(x, ..., logMode = TRUE, subset = 5000)
Hence, each call of pairs leads to different results. By setting the
random seed or the argument "subset" appropriately you could obtain
identical plots for each call.
Julien Bauer wrote:
> I am working for a microarray facility at Cambridge University, we
> have been using the Illumina platform for a while now.
> Lumi is a great package but I noticed something rather odd, when using
> the plot function "pairs" on my data, if I run it again the plots look
> different, some points are shifted or change location. The rest stay
> the same it just the look of the graphs that change.
> My guess is that it is because of the auto scaling of the graph but I
> would like to be sure. I look in the mailing list archive and in the
> vignette but I couldn't find the answer for this.
> Thanks in advance for your help,
> Julien Bauer
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> Bioconductor at stat.math.ethz.ch
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Dr. Matthias Kohl
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