Ok, so that complicates how one would look at the pre-processing and
how to normalize the signals, e.g. one should probably normalize probe
signals of the two CEL files separately and only merge them after this
step.
A small first step would be to see if you can create a spatial image
of the CEL files, e.g.
library("aroma.affymetrix")
df <- AffymetrixCelFile("rawData/FusionSDK_Test3/Test3/Test3-1-121502.CEL")
print(df)
## Display in R
img <- getImage(df)
display(img)
## Generate a PNG and view it
png <- writeImage(df)
browseURL(png)
/Henrik
On Thu, Nov 12, 2015 at 5:05 PM, Keith C <keithchi...@gmail.com> wrote:
> the CEL files are generated from two separate chips and hybs.
>
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