Thank you, Sean. I will double check the help file. But, I do
make the dataFile almost the same with the example file
provided by beadarray package except that I have two columns
in different order in my dataFile compared to the example file.
I think 'skip parameter' is about to skip some header information (rows)
and it should not matter with columns.

Allen

On Thu, Jun 12, 2008 at 5:04 PM, Sean Davis <sdavis2@mail.nih.gov> wrote:

> On Thu, Jun 12, 2008 at 4:23 PM, ss <affysnp@gmail.com> wrote:
> > Hi all,
> >
> > I am using beadarray R package to analyze illumina array data and have a
> > problem
> > with readBeadSummaryData().
> >
> >> BSData = readBeadSummaryData(dataFile = dataFile)
> > Error in readBeadSummaryData(dataFile = dataFile) :
> >  Could not find a column called ProbeID to use as bead identifiers.
>  Check
> > your file and try changing the 'ProbeID' and/or 'skip' arguments.
> >
> > The error said " Could not find a column called ProbeID to use... " but I
> do
> > have such column
> > in the dataFile. Can anyone familiar with beadarray package suggest how
> to
> > get over this?
>
> Hi, Allen.  It will probably help to read the help for the
> readBeadSummaryData() function.  You will need to look at the data
> file that you have and decide what column will represent the unique
> identifier for your arrays and assign that column name to the ProbeID
> argument.  Also, if you do not have a few rows of header information,
> you may need to adjust the skip parameter.  Since you say that you do
> have a ProbeID column, the skip parameter may be the thing to change.
>
> Sean
>

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