You could try using BeadDataPackR and summarizing the data yourself if you
wish :-)

If you are not planning on using BASH or HULK this may actually suit you
well.


On Sun, Oct 3, 2010 at 10:29 AM, Hajar Hassani Lahsinoui <
hajar.hassani@gmail.com> wrote:

> Hi everyone,
>
> I practiced using "Analysing Illumina bead-based data using beadarray by
> Richie & Dunning with the SAMExample dataset. However, when exploring my own
> beadarraydata I found that my raw data files are txt files and not csv (as
> they were in the practical).
> I was able to read the metrics.txt file (this file gives me the date of
> analysis, beadchip, section...etc), but when I try to use:
>
> BLData = readIllumina(arrayNames = metrics$arrayID, textType = ".txt",
> metrics = metrics, backgroundMethod = "none")
>
> I get this response:
> Found 0 arrays
> Error in seq.default(1, length(tmp), by = 3) : wrong sign in 'by' argument
>
> I've tried replacing arrayID with Beadchip, since it is used in the metrics
> file, and still it gives me the same message. There should be 24 arrays. Is
> there another function to read the arrays in R?
>
> Thank you in advance,
>
> Hajar
>
>
>
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>
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-- 
With four parameters I can fit an elephant, and with five I can make him
wiggle his trunk.

John von Neumann

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