NBPSeq-package          Negative Binomial Regression Models for
                        Statistical Analysis of RNA-Sequencing Data
arab                    Arabidopsis RNA-Seq Data Set
estimate.disp           Fit a parametric disperison model to thinned
                        counts
estimate.dispersion     Estimate Negative Binomial Dispersion
estimate.norm.factors   Estiamte Normalization Factors
exact.nb.test           Exact Negative Binomial Test for Differential
                        Gene Expression
irls.nb.1               Estimate the regression coefficients in an NB
                        GLM model
nb.glm.test             Fit Negative Binomial Regression Model and Test
                        for a Regression Coefficient
nbp.test                NBP Test for Differential Gene Expression from
                        RNA-Seq Counts
plot.nb.data            Boxplot and scatterplot matrix of relative
                        frequencies (after normalization)
plot.nb.dispersion      Plot the estimated dispersion as a function of
                        the preliminarily estimated mean relative
                        frequencies
plot.nbp                Diagnostic Plots for an NBP Object
prepare.nb.data         Prepare the NB Data Structure for RNA-Seq Read
                        Counts
prepare.nbp             Prepare the Data Structure for Exact NB test
                        for Two-Group Comparison
print.nb.data           Print summary of the nb counts
print.nb.dispersion     Print the estimated dispersion model
print.nb.test           Print output from 'test.coefficient'
print.nbp               Print summary of an NBP Object
test.coefficient        Large-sample Test for a Regression Coefficient
                        in an Negative Binomial Regression Model
