[BioC] Biobase: How to replace the ExpressionSet phenoData?

Daniel Brewer daniel.brewer at icr.ac.uk
Wed Aug 25 11:58:50 CEST 2010


I have an ExpressionSet object (nodups) and I would like to replace its
phenoData with a different data.frame object (pdata).  I cannot work out
how to do it.  I have tired:

> phenoData(nodups) <- new("AnnotatedDataFrame",pData)
Error in value[[3L]](cond) :
  AnnotatedDataFrame 'data' is class 'standardGeneric' but should be or
extend 'data.frame'
  AnnotatedDataFrame 'initialize' could not update varMetadata:
  perhaps pData and varMetadata are inconsistent?

Any ideas?



Daniel Brewer, Ph.D.

Institute of Cancer Research
Molecular Carcinogenesis
Email: daniel.brewer at icr.ac.uk

The Institute of Cancer Research: Royal Cancer Hospital, a charitable Company Limited by Guarantee, Registered in England under Company No. 534147 with its Registered Office at 123 Old Brompton Road, London SW7 3RP.

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