BitSeq-package          Bayesian Inference of Transcripts from
                        Sequencing data
estimateDE              Estimate condition mean expression and
                        calculate Probability of Positive Log
                        Ratio(PPLR)
estimateExpression      Estimate expression of transcripts
estimateHyperPar        Estimate hyperparameters for DE model using
                        expression samples and joint mean expression
getDE                   Estimate Probability of Positive Log Ratio
getExpression           Estimate transcript expression
getGeneExpression       Calculate gene expression or relative within
                        gene expression
getMeanVariance         Calculate mean and variance of expression
                        samples
loadSamples             Loading and saving expression samples
parseAlignment          Compute probabilities of alignments
tri.file.hasGeneNames   Manage file containing information about
                        transcript reference
tri.load                Manage information about transcript reference
