Hello everyone, I was wondering if anyone knew of a function within bioconductor or method to provide some sort of metric for replicate quality analysis. I have typically been using multipanel graphs (having each replicate plotted vs each other) to get a sense of the replicate qualities. However, I have not been able to find metric that would be good at determining how good a replicate is? I have tried using various outlier elimination methods to count the number of genes being eliminated for each replicate. I have found this to be reasonable for accounting global differences between the sets, but I think it would be useful for analyzing local areas of differences between replicates. If anyone has any ideas, I would be most grateful. Thanks, Richard Park Computational Data Analyzer Joslin Diabetes Center [[alternate HTML version deleted]]