[BioC] Warning in compute.affinities.local()

Naoki Irie asurain at cdb.riken.jp
Thu May 7 08:31:23 CEST 2009

Dear List,

I have tried to calculate "ai" by commands bellow, but warning returns.
Is my ai calculated correctly? or do I have to calculate again by  
using 'complement(DNAStringSet(seq))'.
If I have to calculate again with 'complement(DNAStringSet(seq))', how  
can I done that ?


 > ai <- compute.affinities.local(data, Array=NULL)
Computing affinities..............................Done.
Warning message:
'complementSeq' is deprecated.
Use 'complement(DNAStringSet(seq))' instead.
See '?complementSeq'

 > data
AffyBatch object
size of arrays=712x712 features (14 kb)
cdf=Zebrafish (15617 affyids)
number of samples=30
number of genes=15617


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