Extracting Probeset IDs from .CELfiles

Question

[siddharth.avadhanam]

Hi,

I have .CEL files (in replicates ) for a single experiment on Bronchial Epithelial Cells. I would like to know how to open these or extract the probeset IDs using R so that I can annotate them using the Bioconductor functionality. I want to generate a list in R containing the probe IDS from the .CEL files, which can then be annotated using the annotationTools package. I don't know how to go about doing the former task.

Appreciate any help

Thanks in advance
Siddharth Avadhanam

[zx8754]

http://stackoverflow.com/questions/29277977/extracting-probeset-ids-from-cel-files-into-an-r-list-for-annotation

[Pierre Lindenbaum]

Hello zx8754!

It appears that your post has been cross-posted to another site: http://stackoverflow.com/questions/29277977/extracting-probeset-ids-from-cel-files-into-an-r-list-for-annotation

This is typically not recommended as it runs the risk of annoying people in both communities.

[siddharth.avadhanam]

Hi

Sorry. I'll keep that in mind.

Thanks for all the help :)

[zx8754]

You meant "Hello siddharth.avadhanam"?

Answer 1

[Sean Davis]

The oligo package in bioconductor is designed to work with affy arrays. An older package, the affy package, may also be applicable.