[BioC] NuID conversions
dupan at northwestern.edu
Wed Sep 3 00:08:39 CEST 2008
We have developed the Illumina IDMapping Metadata packages for this kind of
conversion. For Human, you can use the lumiHumanIDMapping.db package in
developing version of Bioc 2.3:
For more details, please read the " IlluminaAnnotation.pdf" vignette in the
lumi package (developing version 1.7.20).
You can use nuID2probeID function in the :
nuID2probeID(nuID, lib.mapping = "lumiHumanIDMapping.db")
Tell me if you have any questions.
On 9/2/08 11:31 AM, "Merja Heinaniemi" <merja.heinaniemi at uni.lu> wrote:
> Dear Pan,
> Two simple questions but I just stumbled on these trying to finish my
> 1) I wanted to make a simple NuID to probeID conversion, my data is Illumina
> Human v3. I got an error message that LumiHumanAll.db does not support the id
> conversion. Is this true or am I just doing sth wrong?
> 2) If I have a vector with ProbeIDs that I am interested in and a normalized
> LumiBatch object from this same Illumina array type, how do I take out from
> the whole dataset just expression values for the specified ProbeIDs?? I want
> to make a heatmap from data of these probes (this set of probes was sign
> regulated under my comparisons).
> Kind regards,
> Merja Heinäniemi
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