[BioC] Beadarray readBeadSummaryData() problem

[Sean Davis]

On Thu, Jun 12, 2008 at 4:23 PM, ss <affysnp at 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