dafs                    dafs
dafsFilter              dafsFilter Function to filter expression data
                        within an object.
generateStats           generateStats Statistics function to summarize
                        expression data of an s.e. object.
getLibsizes3            getLibsizes3 Get Lib Sizes.
glSeq                   glSeq LME4 wrapper.
hmel.dat                Hmel data set
iqrxFilter              iqrxFilter Function to filter expression data
                        within an s.e. object.
make_RPKM               make_RPKM Make RPKM.
plotExpr                plotExpr Function to generate a boxplot
                        (expression) for a SummarizedExperiment object
                        based on the replicate data.
plotMA.se               plotMA.se Function to make MA plot.
plotRatioBoxes          plotRatioBoxes Function to boxplot density of
                        ratios between two treatments (using groupings
                        from an annotation column) within a
                        SummarizedExperiment object.
plotRatioDensity        plotRatioDensity Function to plot density of
                        ratios between two treatments (using groupings
                        from an annotation column) within an object.
quantFilter             quantFilter Function to filter expression data
                        of a SummarizedExperiment object.
se                      Hmel data set
se.DM                   se.DM Function to convert SummarizedExperiment
                        object to LME4 input.
simpleFilter            simpleFilter Function to filter expression data
                        of an object.
test_diffs              test_diffs Statistics function to summarize
                        expression data of an object, using ratios
                        between selected treatments.
