On Wed, Aug 5, 2009 at 4:28 AM, Lavinia Gordon
<lavinia.gordon@mcri.edu.au>wrote:

>
>   Dear all
>   I would like to use the package 'geneplotter' which requires a
> Bioconductor
>   data package.
>   I cannot see a Bioconductor data package for the Nimblegen HG18 promoter
>   arrays, so I will need to make my own.
>   Based on what I can see in the mailing list, I believe that I need to use
>   AnnotationDbi, and modify the function makeProbePackage to read in
> NimbleGen
>   (as opposed to Affymetrix data).
>   Could  anyone confirm that I am on the right track?/show me any useful
>   pointers?
>   with many thanks for your time,
>


There are other ways to go here.  You could try the Ringo, ACME,
tilingArray, or oligo packages for data import and analysis.  Each also has
graphical functions for output.  For graphics, you could additionally look
at GenomeGraphs and rtracklayer.

Sean

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