baySeq: Empirical Bayesian analysis of patterns of dierential expression in count data

We assume that we have data from a set of sequencing or other high-throughput experiments, arranged in an array such that each column describes a sample and each row describes some genomic event for which data have been acquired. For example, the rows may correspond to the different sequences observed in a sequencing experiment. The data then consists of the number of times each sequence is observed in each sample. We wish to determine which, if any, rows of the data correspond to some patterns of differential expression across the samples.