[BioC] Determining which comparisons show significant difference Multi-class SAM

[elliott harrison]

Hi BioC,

I've had a good hunt through the documentation but can't find a solution
to this.
Is it possible to determine between which classes a probes has a delta
value above the threshold and perhaps output that along with the
significant probes?


For example

Say the following design

cl <-
c(4,9,7,8,1,7,6,4,1,2,3,4,4,7,8,2,9,3,8,6,2,2,3,9,7,8,1,4,1,2,7,2,8,5,5,
1,9,9,3,5,3,5,5,1,9,7,8,6,6,4,6,5,3)
 
sam.out <- sam(eset.rma, cl, rand = 123)


Can I extract sat and list of 1-3,1-7 showing a probe was differential
for those comparisons from the sam.out object?

Many thanks

Elliott


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