Looking for a package allowing Affymetrix MoGene2.1ST processing
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steppydeklin ▴ 10
@steppydeklin-9271
Last seen 5.6 years ago
European Union

Hello, 

I have a set of MoGene 2.1ST microarrays. Does anyone have some experience with the analysis of these chips? I tried the affy package without success? Is there a package available?

Thanks

Stephane

affy xps rma oligo • 1.1k views
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Guido Hooiveld ★ 4.1k
@guido-hooiveld-2020
Last seen 7 hours ago
Wageningen University, Wageningen, the …

The 'affy' package will not work; you indeed have to go for 'Oligo' or 'XPS'.

James MacDonald has addressed this question many times on the list, see e.g: A: how to normalize mogene 2.1 st array? and A: Annotation for a MoGene-2_0-st Chip/Arry Data and A: normalizing all affymetrix array type with affy package impossible with R 3.x ?

 

^^ don't forget to adapt the above-listed code(s) to your array type.

 

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