[BioC] Dealing with technical replication with a common reference design

[Gordon Smyth]

At 08:43 PM 12/09/2005, michael watson \(IAH-C\) wrote:
>Thanks Gordon
>
>When I called duplicateCorrelation, I got three warning messages:
>
>Too much damping - convergence tolerance not achievable in: glmgam.fit(
>etc etc)
>
>My corfit$consensus was then positive, even though it is a dye-swap
>experiment.  Presumably this means I don't have to treat the technical
>replicates in any special way...?
>
>Mick

That would be my interpretation, if everything else is correct. Technical 
variation often dominates biological. If the correlation is much larger 
than zero however, something is wrong.

Gordon