Darken                  Darkens input colors by a set amount
Lighten                 Lightens input colors by a set amount
Simulate                Simulates what a colorblind person would see
                        for any dittoSeq plot!
addDimReduction         Add any dimensionality reduction space to a
                        SingleCellExperiment object containing bulk or
                        single-cell data
addPrcomp               Add a prcomp pca calculation to a
                        SingleCellExperiment object containing bulk or
                        single-cell data
demux.SNP.summary       Plots the number of SNPs sequenced per droplet
demux.calls.summary     Plots the number of annotations per sample, per
                        lane
demuxlet.example        demuxlet.example
dittoBarPlot            Outputs a stacked bar plot to show the percent
                        composition of samples, groups, clusters, or
                        other groupings
dittoColors             Extracts the dittoSeq default colors
dittoDimPlot            Shows data overlayed on a tsne, pca, or similar
                        type of plot
dittoDotPlot            Compact plotting of per group summaries for
                        expression of multiple features
dittoFreqPlot           Plot cell type/cluster/identity frequencies per
                        sample and per grouping
dittoHeatmap            Outputs a heatmap of given genes
dittoHex                Show RNAseq data, grouped into hexagonal bins,
                        on a scatter or dimensionality reduction plot
dittoPlot               Plots continuous data for customizeable
                        cells'/samples' groupings on a y- (or x-) axis
dittoPlotVarsAcrossGroups
                        Generates a dittoPlot where data points are
                        genes/metadata summaries, per groups, instead
                        of individual values per cells/samples.
dittoScatterPlot        Show RNAseq data overlayed on a scatter plot
dittoSeq                dittoSeq
gene                    Returns the expression values of a gene for all
                        cells/samples
getGenes                Returns the names of all genes of a target
                        object.
getMetas                Returns the names of all meta.data slots of a
                        target object.
getReductions           Returns the names of all dimensionality
                        reduction slots of a target object.
importDemux             Extracts Demuxlet information into a pre-made
                        SingleCellExperiment or Seurat object
importDittoBulk         import bulk sequencing data into a
                        SingleCellExperiment format that will work with
                        other dittoSeq functions.
isBulk                  Retrieve whether a given object would be
                        treated as bulk versus single-cell by dittoSeq
isGene                  Tests if input is the name of a gene in a
                        target object.
isMeta                  Tests if an input is the name of a meta.data
                        slot in a target object.
meta                    Returns the values of a meta.data for all
                        cells/samples
metaLevels              Gives the distinct values of a meta.data slot
                        (or ident)
multi_dittoDimPlot      Generates dittoDimPlots for multiple features.
multi_dittoDimPlotVaryCells
                        Generates multiple dittoDimPlots, for a single
                        feature, where each showing different cells
multi_dittoPlot         Generates dittoPlots for multiple features.
setBulk                 Set whether a SingleCellExperiment object
                        should be treated as bulk versus single-cell by
                        dittoSeq
