[BioC] gcrma with bpmap file instead of cdf file

[Kasper Daniel Hansen]

It depends on what you mean with gcrma. I assume you are using a  
tiling array since you have bpmap files. On a tiling array there are  
not really any probesets, which is required by parts of gcrma.

What you might be interested in is running the background correction  
as well as the normalization. And that should be possible witha  bit  
of hand-tweaking I _think_.

Kasper

On Jan 10, 2007, at 8:39 AM, Baoqiang Cao wrote:

> Dear All,
>
> I'm trying to use gcrma to analysis the data I have. Unfortunately,  
> I only have cel file and the bpmap file for the arrays. It seems  
> that cdf file is manditory for gcrma, any possibile way I could  
> bypassing it with the bpmap file? Any help will be certainly  
> appreciated.
>
> Best,
>  Baoqiang Cao
>
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