normalised data after RUV2( )
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Pauly Lin ▴ 120
@pauly-lin-7537
Last seen 6.0 years ago
University of New South Wales, Australia

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

ruv microarray • 1.1k views
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gthm ▴ 20
@gthm-8377
Last seen 2.5 years ago
spain

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

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