Warning message: 'channel' automatically added to varMetadata in phenoData.
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Entering edit mode
26 days ago
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I am trying to do microarray differential gene expression analysis using this workflow-

 raw_data <- oligo::read.celfiles(filenames = file.path(raw_data_dir, SDRF$Array.Data.File),verbose = FALSE, phenoData = SDRF)

Warning message:
In oligo::read.celfiles(filenames = file.path(raw_data_dir, SDRF$Array.Data.File),  :
  'channel' automatically added to varMetadata in phenoData.

I tried to google it to get an idea of what these warnings implying for but could not understand what is written out there. Anyone has an opinion; please share it with me.

Thanks!

r microarray oligo celfiles • 92 views
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1
Entering edit mode
26 days ago

What I understood is that 'channel' is a column that should be in varMetadata. I guess since it was added automatically, no need to worry!

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