CHETAHclassifier        Identification of cell types aided by
                        hierarchical clustering
CHETAHshiny             Launch a web page to interactively go trough
                        the classification
Classify                (Re)classify after running 'CHETAHclassifier'
                        using a confidence threshold NOTE: In case of
                        bulk reference profiles: only the correlations
                        will be used, as the data does not allow for
                        profile or confidence scores to be calculated.
ClassifyReference       Use a reference dataset to classify itself. A
                        good reference should have almost no mixture
                        between reference cells.
CorrelateReference      Correlate all reference profiles to each other
                        using differentially expressed genes.
PlotCHETAH              Plot the CHETAH classification on 2D
                        visulization like t-SNE + the corresponding
                        classification tree, colored with the same
                        colors
PlotTSNE                Plots a variable on a t-SNE
PlotTree                Plots the chetah classification tree with nodes
                        numbered
RenameBelowNode         In the CHETAH classification, replace the name
                        of a Node and all the names of the final and
                        intermediate types under that Node.
headneck_ref            A SingleCellExperiment with celltypes in the
                        "celltypes" colData. A subset of the Head-Neck
                        data from Puram et al. (2017) Cancer Cell.
input_mel               A SingleCellExperiment on which
                        CHEATHclassifier is run using the
                        'headneck_ref' It holds subset of the Melanoma
                        data, from Tirosh et al. (2016), Science.
