Anota2seqDataSet-class
                        Anota2seqDataSet class
anota2seq-plots         Visualization of anota2seq results
anota2seqAnalyze        Analysis of translational activity
anota2seqDataSetFromMatrix
                        Anota2seqDataSet constructors.
anota2seqGetContrasts   Accessor for the 'contrasts' slot of an
                        Anota2seqDataSet object.
anota2seqGetCovariates
                        Accessor for the 'phenoVec' and 'batchVec'
                        slots of an Anota2seqDataSet object.
anota2seqGetDeltaData   Accessor for the fold changes and TE scores
                        stored in the 'deltaData' slot of an
                        Anota2seqDataSet object.
anota2seqGetNormalizedData
                        Accessor for the 'normalizedDataP' and
                        'normalizedDataT' slots of an Anota2seqDataSet
                        object.
anota2seqGetOutput      Retrieve output for analyzes stored in the
                        Anota2seqDataSet
anota2seqGetQualityControl
                        Retrieve the anota2seqPerformQC output from the
                        Anota2seqDataSet
anota2seqGetResidOutlierTest
                        Retrieve residOutlierTest
anota2seqGetThresholds
                        Get filtering criteria thresholds
anota2seqPerformQC      Perform quality control to ensure that the
                        supplied data set is suitable for Analysis of
                        Partial Variance (APV) within anota2seq.
anota2seqRegModes       Categorize genes into regulatory modes of gene
                        expression (mRNA abundance or changes in
                        translational efficiency leading to altered
                        protein levels or buffering)
anota2seqResidOutlierTest
                        Test for normality of residuals
anota2seqRun            Wrapper for several functions which provide
                        one-step analysis
anota2seqSelSigGenes    Select identifiers from the output of
                        'anota2seqAnalyze'.
anota2seq_data          Sample data set for anota2seq
show,Anota2seqDataSet-method
                        Show information for an Anota2seqDataSet
