Hi to everybody,

I have started recently to analyse Illumina Bead Chip data. I started
without any kind of problem and I was glad with the results until I saw
that comment from the beadarray library authors:

"iScan come in a different format,.... there are two images of each array
section (along with two .locs files), which are labeled Swath1 and Swath2"

I don't have those files, I have only the perBeadFile.txt and after the
authors wrote: "Given this, simply reading the bead-level text file will
result in any function that uses bead locations performing undesirably"

And now I am afraid if I did something wrong.. I am not receving any
message when I read my files with the function readIllumina and they have
also wrote that I should receive a message from the function advising me to
use processSwathData.

Does anybody know in which cases using perBeadFile.txt is ok and in which
cases no?

thanks a lot for the help

Best wishes

Mireia

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