chipType <- "Hs_PromPR_v02"
cdf <- AffymetrixCdfFile$byChipType(chipType, verbose=verbose)
cs <- AffymetrixCelSet$byName("GSE17125", cdf=cdf, verbose=verbose)
acp <- AromaCellPositionFile$byChipType(chipType)
#dim 4359744 2
data <- extractMatrix(cs)
#dim: 4691556 66
On May 17, 5:29 pm, Henrik Bengtsson <henrik.bengts...@aroma-
project.org> wrote:
> Hi,
>
> which chip type and CDF are you thinking of? Even better, please show
> the code how you got those numbers and we take it from there.
>
> /Henrik
>
> On Tue, May 17, 2011 at 1:53 PM, Irene Pylypenko <ipylype...@gmail.com> wrote:
> > Hello,
> > How do I find the genomic location of each probe (cell)? Specifically,
> > a chromosome # and start site. Is this information stored in a
> > AffymetrixCelSet object?
> > I know the cdf object contains this information, via the
> > AromaCellPositionFile file, but this gives me 4,359,744 probes, where
> > as AffymetrixCelSet gives me 4,691,556. So I was wondering how I could
> > map these two files.
> > I know about the UGP files, but I believe it gives the unit locations,
> > whereas I'm interested in probe location.
> > Thanks,
> > Irene
>
> > --
> > When reporting problems on aroma.affymetrix, make sure 1) to run the latest
> > version of the package, 2) to report the output of sessionInfo() and
> > traceback(), and 3) to post a complete code example.
>
> > You received this message because you are subscribed to the Google Groups
> > "aroma.affymetrix" group with websitehttp://www.aroma-project.org/.
> > To post to this group, send email to aroma-affymetrix@googlegroups.com
> > To unsubscribe and other options, go tohttp://www.aroma-project.org/forum/
--
When reporting problems on aroma.affymetrix, make sure 1) to run the latest
version of the package, 2) to report the output of sessionInfo() and
traceback(), and 3) to post a complete code example.
You received this message because you are subscribed to the Google Groups
"aroma.affymetrix" group with website http://www.aroma-project.org/.
To post to this group, send email to aroma-affymetrix@googlegroups.com
To unsubscribe and other options, go to http://www.aroma-project.org/forum/
