.addLagsToTimeSeries    Add differences to the time-course data.
.imputeData             Imputing missing samples
TimeSeriesExperiment-class
                        Time Series Experiment Class
addLags                 Add differences to the time-course data.
assayCollapsed          Collapsed data.
assignClusterDynamic    Cluster assignment using dynamic branch
                        cutting.
assignClusterStatic     Cluster assignment using static branch cutting.
clusterAssignment       Cluster analysis results
clusterData             Cluster time series data.
clusterTimeSeries       Cluster time series features.
colData<-,TimeSeriesExperiment,ANY-method
                        Column data for 'TimeSeriesExperiment'
collapseReplicates      Collapse data over replicates.
colnames<-,TimeSeriesExperiment-method
                        Row and column name getters and setters for
                        'TimeSeriesExperiment' object.
dataToTimeSeries        Data to time-series
differentialExpression
                        Differential Expression for
                        'TimeSeriesExperiment'
dimensionReduction      Dimension reduction results
endoderm_small          Endoderm differentiation
filterFeatures          Filter features
groups                  Group information
makeTimeSeries          Convert data to time-series
makeTimeSeriesExperimentFromExpressionSet
                        TimeSeriesExperiment constructor from
                        ExpressionSet
makeTimeSeriesExperimentFromSummarizedExperiment
                        TimeSeriesExperiment constructor from
                        SummarizedExperiment
meltMatrix              Melt data matrix.
normalizeData           Normalize Data
pathwayEnrichment       Pathway enrichment testing.
plotEnrichment          Plot enrichment results.
plotHeatmap             Plot a heatmap
plotSamplePCA           Plot a standard PCA
plotTimeSeries          Plot selected time series.
plotTimeSeriesClusters
                        Plot (time) series over clusters.
plotTimeSeriesPCA       Overlay (time) series over PCA grid
replicates              Replicate information
rowData<-,TimeSeriesExperiment-method
                        Row data for 'TimeSeriesExperiment'
runPCA                  Run PCA scores.
show,TimeSeriesExperiment-method
                        show method for 'TimeSeriesExperiment'
timeSeries              Time series formatted data.
timepointDE             Differential timepoint expression testing.
timepoints              Timepoint information
trajectoryDE            Differential trajectory testing.
varianceStabilization   Variance stabilization.
