L_Tung_single           Single cell samples for DE genes analysis
ROSeq                   A rank based approach to modeling gene
                        expression with filtered and normalized read
                        count matrix
TMMnormalization        TMM Normalization.
computeDEG              Computes differential expression for the gene
                        in question, by comparing the optimal
                        parameters for sub-populations one and two
findParams              Finds the optimal values of parameters a and b
                        that model the probability distribution of
                        ranks, by Maximising the Log-Likelihood
getDataStatistics       Evaluates statistics of the read counts
                        corresponding to the gene
getI                    Computes the Fisher Information Matrix
getd                    Finds the double derivative of A
getdu1da                Finds the first derivative of u1 with respect
                        to a.  This first derivative is evaluated at
                        the optimal (a_hat, b_hat).
getdu1db                Finds the first derivative of u1 with respect
                        to b.  This first derivative is evaluated at
                        the optimal (a_hat, b_hat).
getdu2da                Finds the first derivative of u2 with respect
                        to a.  This first derivative is evaluated at
                        the optimal (a_hat, b_hat).
getdu2db                Finds the first derivative of u2 with respect
                        to b.  This first derivative is evaluated at
                        the optimal (a_hat, b_hat).
getdvda                 Finds the first derivative of v with respect to
                        a.  This first derivative is evaluated at the
                        optimal (a_hat, b_hat).
getdvdb                 Finds the first derivative of v with respect to
                        b.  This first derivative is evaluated at the
                        optimal (a_hat, b_hat).
getu1                   Computes u1
getu2                   Computes u2
getv                    Computes v
initiateAnalysis        Computes differential analysis for a given gene
minimizeNLL             Minimizes the Negative Log-Likelihood by
                        iterating across values of parameters a and b
