buildXmat               An auxialiary function to quickly construct the
                        polyomial matrix, using Horner's rule
calculateCPM            Calculates counts per millions of reads,
                        possibly with log-transform
checkInputValidity      Check for data validity
chooseCandGenes         Select candidate genes
configExperiment        Configure experiment
constructDens           Construct the cumulative density
estLibSizeDistr         Estimate log-normal distribution for the
                        library sizes
evaluateDensities       Evaluate the densities in the estimated
                        SPsimSeq object
expit                   Evaluate the expit function
extractMat              A function with S4 dispatching to extract the
                        count matrix
fitLLmodel              Fit log linear model for each gene
fitPoisGlm              Fast fit Poisson regression
fracZeroLogitModel      Extract data and iterate over batches to
                        estimate zero probability models
genCopula               Generate a copula instance
geneParmEst             Gene level param estimates for density
                        estimation
genLibSizes             Generate library sizes from log-normal
matchCopula             Match copulas to estimated SP distribution
obtCorMatsBatch         A function to obtain copulas or uniform random
                        variables
obtCount                Calculates height and mid points of a
                        distribution
parmEstDensVec          Density estimation on a single vector
prepareSPsimOutputs     A function to prepare outputs
samZeroID               Return ID for observations to be set to zero
scNGP.data              Neuroblastoma NGP cells single-cell RNA-seq.
selectGenes             Sample genes from candidate genes
SPsimPerGene            A function that generates the simulated data
                        for a single gene
SPsimSeq                A function to simulate bulk or single cell RNA
                        sequencing data
SPsimSeq-package        SPsimSeq package
zeroProbModel           Predict zero probability using logistic
                        rgression
zhang.data.sub          Neuroblastoma bulk RNA-seq data retrieved from
                        Zhang et (2015).
