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Question: normalised data after RUV2( )
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gravatar for Pauly Lin
2.5 years ago by
Pauly Lin60
University of New South Wales, Australia
Pauly Lin60 wrote:

Hi!

I’m using the RUV2( ) function in the “ruv” package to process my micro-array data. Could anyone please tell me how I can get the normalised data? I can’t see it under “Value” in the help page of RUV2( ). (RUVg( ) in the "RUVSeq" package returns the normalised data.) I understand that I shouldn’t use the normalised data for any downstream analysis; I need the normalised data only for the purpose of creating PCA plots so that I know whether the samples cluster properly after RUV-2 algorithm.

Cheers

Paul

ADD COMMENTlink modified 2.4 years ago by gthm0 • written 2.5 years ago by Pauly Lin60
0
gravatar for gthm
2.4 years ago by
gthm0
spain
gthm0 wrote:

You should be able to access normalised counts from normCounts() e.g normCounts(set)

ADD COMMENTlink written 2.4 years ago by gthm0
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