[BioC] running vsn from Limma

Catherine Juste catherine.juste at jouy.inra.fr
Wed Apr 2 15:17:43 CEST 2008


Dear all,

I am trying to run vsn from Limma (R version 2.6.0 (2007-10-03))
Here is my code and the return:
 > essai2=normalizeBetweenArrays(essai,method="vsn")
vsn: 2007 x 24 matrix (1 stratum). 100% done.
Warning messages:
1: The function 'vsn' is deprecated, could you please use 'vsn2' instead.
2: The exprSet class is deprecated, use ExpressionSet instead
3: The exprSet class is deprecated, use ExpressionSet instead
4: The exprSet class is deprecated, use ExpressionSet instead
5: The exprSet class is deprecated, use ExpressionSet instead
6: The exprSet class is deprecated, use ExpressionSet instead

What is wrong ???

Many thnks for your help

catherine



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