Hi,all If i want to downweight the lower quality arrays using the arrayWeights() function in limma, how to do? please in detail. Thanks Gordon Smyth wrote: At 08:08 AM 6/09/2005, Adaikalavan Ramasamy wrote: >Gordon, this is a good point that you raise. But can I ask you another, >somewhat harder, question ? > >What should one do when the an arrays fail quality assessment. Do we >simply omit it or can we possible correct for them. The decision to omit >might be the obvious one but it seems a bit wasteful when the the >proportion of arrays is large. > >I would be equally happy to hear from others on the list as well. > >Regards, Adai In some cases poor quality arrays will have to be dropped, but an alternative is to downweight the lower quality arrays using the arrayWeights() function in limma or array level standard errors from affyPLM. Gordon _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/bioconductor Best Regards Han Weinong --------------------------------- Click here to donate to the Hurricane Katrina relief effort. [[alternative HTML version deleted]]