DGEList-class           Digital Gene Expression data - class
EBList-class            differential expression of Digital Gene
                        Expression data - class
Tu102                   Raw data for several SAGE libraries from the
                        Zhang 1997 Science paper.
alpha.approxeb          Estimate the prior weight, alpha
approx.expected.info    Approximate of expected information (Fisher
                        information)
condLogLikDerDelta      Conditional log-likelihood in terms of delta
condLogLikDerSize       Conditional log-likelihood in terms of size
deDGE                   Compute moderated differential expression
                        scores for digital gene expression (DGE) data
deDGEList-class         differential expression of Digital Gene
                        Expression data - class
estimatePs              Estimate expression proportions
exactTestNB             An exact test for differences between two
                        negative binomial groups
findMaxD2               Maximizes the negative binomial likelihood
getData                 Extract data table from DGEList object
interpolateHelper       Quantile Adjustment interpolator
logLikDerP              Log-likelihood for proportion
plotMA                  MA-like plot for deDGEList objects
quantileAdjust          Normalizes a dataset by using a quantile
                        adjustment
readDGE                 Read a list of files containing DGE data
splitIntoGroups         Split the data from a DGEList object according
                        to group
splitIntoGroupsPseudo   Split pseudodata according to group
tau2.0.objective        Objective function for tau2
topTags                 Displays the top differentially expressed tags
                        in a table
