PDgivenr                Functions for estimating the likelihood of the
                        data given an equivalence relation for some
                        assumption on the distribution.
baySeq-classes          baySeq - classes
baySeq-package          Empirical Bayesian analysis of patterns of
                        differential expression in count data.
factCount               Simulated data for testing the baySeq package
                        methods; simulated counts from a factorial
                        design differential expression analysis
factlibsizes            Simulated data for testing the baySeq package
                        methods; simulated library sizes from a
                        pairwise differential expression analysis
getLikelihoods          Finds posterior likelihoods for each count as
                        belonging to some hypothesis.
getPosteriors           An internal function in the baySeq package for
                        calculating posterior likelihoods given
                        likelihoods of the data.
getPriors               Estimates prior parameters for the underlying
                        distributions of 'count' data.
getTPs                  Gets the number of true positives in the top n
                        counts selected by ranked posterior likelihoods
libsizes                Simulated data for testing the baySeq package
                        methods; simulated library sizes from a
                        pairwise differential expression analysis
logsum                  An internal function for the baySeq package
                        that calculates the log of the sum of the
                        exponential of two variables
simCount                Simulated data for testing the baySeq package
                        methods; simulated counts from a pairwise
                        differential expression analysis
topCounts               Get the top counts corresponding to some group
                        from a 'countDataPosterior' object
