[BioC] Nimblegen Microarray-gene expression analysis using Biocnductor

Todd Richmond richmond.todd at gmail.com
Wed Oct 8 02:57:57 CEST 2008

Dhiraj Naik wrote:
> Hi,
> I am postdoc working with genome wide gene expression using Poplar
> oligonucleotide Nimblgen array. I am beginner in R and bioconductor. I have
> Nimblgen raw data in .pair file format. I dont know how to use that using
> Oligo vignette which is available in bioconductor. How to have input file in
> R format from .pair files?
> Thanks
> Dhriaj

The oligo package loads .xys files, not .pair files. If you did the 
hybridizations in your own lab, use NimbleScan to generate .xys files 
from the tiff images. If you got your data from the service lab, contact 
technical support and ask them to generate the .xys files for your order.


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